Protein,Gene,Fold.change.amp.vs.non-amp,n.amplified.case,amp.adj.p.BH,Fold.change.del.vs.non-del,n.deleted.case,del.adj.p.BH 1433EPSILON,YWHAE,1.02,216,0.023023529,0.927,1327,1.63E-41 4EBP1,EIF4EBP1,1.28,776,1.21E-39,0.898,782,2.03E-15 4EBP1PS65,EIF4EBP1,0.994,776,0.543090909,0.995,782,0.570118919 4EBP1PT37T46,EIF4EBP1,1.11,776,4.72E-07,0.932,782,3.66E-05 4EBP1PT70,EIF4EBP1,1.03,776,0.000682257,0.975,782,0.000127958 53BP1,TP53BP1,1.14,179,0.000648519,0.941,1006,9.88E-05 ACC1,ACACA,1.57,507,1.38E-49,1.03,758,0.221259259 ACCPS79,ACACA,1.41,507,1.12E-37,0.914,758,1.09E-06 ACCPS79,ACACB,1.03,551,0.206,0.997,428,0.89872549 ACETYLATUBULIN(LYS40),TUBA8,0.832,384,2.41E-06,0.963,951,0.280457831 ACETYLATUBULIN(LYS40),TUBA1A,0.888,605,0.000352536,0.971,317,0.557543478 ACETYLATUBULIN(LYS40),TUBA1B,0.886,607,0.000287085,0.97,315,0.557213115 ACETYLATUBULIN(LYS40),TUBA1C,0.888,608,0.000367857,0.969,316,0.526318681 ACETYLATUBULIN(LYS40),TUBA3C,0.824,515,4.47E-09,0.896,934,0.000942496 ACETYLATUBULIN(LYS40),TUBA3D,0.918,457,0.021829851,0.907,335,0.018601493 ACETYLATUBULIN(LYS40),TUBA3E,0.918,463,0.020754887,0.91,330,0.023780882 ACETYLATUBULIN(LYS40),TUBA4A,0.981,432,0.640184615,0.867,474,5.17E-05 AKT,AKT1,1.06,445,0.003018966,0.922,863,4.43E-12 AKT,AKT2,1.01,659,0.459881081,1.03,431,0.130957143 AKT,AKT3,1.04,1300,0.000508941,0.975,179,0.316357143 AKTPS473,AKT1,0.819,445,2.45E-08,0.867,863,1.45E-07 AKTPS473,AKT2,0.858,659,2.67E-07,0.776,431,7.93E-14 AKTPS473,AKT3,0.859,1300,4.81E-09,0.799,179,1.14E-05 AKTPT308,AKT1,0.906,445,0.002686957,0.849,863,3.56E-11 AKTPT308,AKT2,0.878,659,2.18E-06,0.812,431,3.53E-12 AKTPT308,AKT3,0.885,1300,2.24E-07,0.833,179,0.0001232 AMPKALPHA,PRKAA1,0.983,972,0.229159763,0.827,222,6.24E-17 AMPKPT172,PRKAA1,0.999,972,0.962,0.895,222,0.000736775 ANNEXINVII,ANXA7,1.04,384,4.68E-05,0.908,736,1.32E-39 AR,AR,1.02,449,0.555542553,0.978,507,0.491668508 ARAFPS299,ARAF,1.03,404,0.006695,1,599,0.70104712 ARID1A,ARID1A,1.15,254,9.15E-18,0.994,916,0.435542857 ASNS,ASNS,1.14,1088,2.12E-13,0.971,222,0.34495858 ATM,ATM,1.17,366,1.61E-06,0.857,816,1.24E-14 BADPS112,BAD,1.02,467,0.116109091,0.954,444,3.50E-05 BAK,BAK1,0.901,604,1.33E-11,0.96,441,0.071889796 BAP1C4,BAP1,1.15,247,2.80E-11,0.94,1203,2.07E-08 BAX,BAX,0.994,532,0.654598985,0.854,576,3.21E-40 BCL2,BCL2,1.11,283,0.003222051,0.73,1194,9.27E-87 BCLXL,BCL2L1,1.09,1368,2.78E-21,0.982,87,0.40366474 BECLIN,BECN1,1.03,496,0.003369322,0.992,751,0.36019883 BETACATENIN,CTNNB1,0.937,285,0.149936709,0.9,1127,5.86E-06 BID,BID,0.968,360,0.006196748,0.975,969,0.00162225 BIM,BCL2L11,1.09,487,5.03E-06,1.12,294,6.38E-06 BRAF,BRAF,1.17,1110,6.94E-23,0.893,259,3.24E-06 BRCA2,BRCA2,0.957,517,4.54E-06,0.958,941,1.12E-06 CASPASE7CLEAVEDD198,CASP7,1.02,313,0.587801047,0.776,888,4.84E-29 CAVEOLIN1,CAV1,0.937,1061,0.044609655,0.867,265,0.009813386 CD20,MS4A1,0.949,437,4.54E-08,0.944,431,2.24E-10 CD31,PECAM1,0.949,810,6.42E-08,0.935,392,1.86E-09 CD49B,ITGA2,0.977,480,0.166580247,0.931,701,4.12E-06 CDK1,CDK1,1.02,358,0.1532125,1.01,485,0.491407821 CHK1,CHEK1,1.03,343,0.012312824,0.994,828,0.491407821 CHK1PS345,CHEK1,1,343,0.77480597,0.977,828,5.77E-05 CHK2,CHEK2,1.22,344,3.89E-18,0.996,1004,0.799826531 CHK2PT68,CHEK2,1.1,344,1.51E-11,1.03,1004,0.000204038 CIAP,BIRC2,1.05,445,3.33E-06,0.96,712,1.71E-08 CJUNPS73,JUN,1.04,410,0.000536788,0.976,579,0.014262748 CKIT,KIT,1.03,360,0.341404494,0.976,634,0.2163 CLAUDIN7,CLDN7,1.29,177,0.000272452,1.16,1379,5.27E-07 CMETPY1235,MET,1.02,1064,0.001224865,0.966,260,2.09E-05 CMYC,MYC,1.16,1606,8.06E-23,0.999,109,0.981 COLLAGENVI,COL6A1,0.966,479,0.153540373,0.975,711,0.239914634 CRAF,RAF1,1.11,376,6.24E-19,0.911,1036,2.58E-41 CRAFPS338,RAF1,1.03,376,0.000352536,0.988,1036,0.011957656 CYCLINB1,CCNB1,0.764,361,1.80E-08,1.41,941,5.64E-36 CYCLIND1,CCND1,1.02,752,0.031770423,0.945,307,4.98E-08 CYCLINE1,CCNE1,1.34,779,1.90E-33,0.941,286,0.019379259 CYCLINE2,CCNE2,1,1418,0.66689899,0.975,175,0.402418605 DJ1,PARK7,1.04,317,0.008385984,0.85,879,4.16E-57 DVL3,DVL3,1.22,1104,6.84E-78,0.926,213,3.65E-05 ECADHERIN,CDH1,1.16,400,0.000596623,0.858,1022,2.60E-06 EEF2,EEF2,1.04,330,0.217101796,0.829,953,8.79E-24 EEF2K,EEF2K,1.17,799,1.13E-17,1.02,383,0.420287356 EGFR,EGFR,1.24,1207,1.97E-32,0.87,154,1.05E-12 EGFRPY1068,EGFR,1.56,1207,3.36E-29,0.765,154,8.97E-07 EGFRPY1173,EGFR,1.28,1207,2.21E-21,0.864,154,7.93E-14 EIF4E,EIF4E,1.09,177,3.63E-08,0.926,922,8.93E-24 EIF4G,EIF4G1,1.23,1095,1.16E-57,0.983,212,0.466700565 ERALPHA,ESR1,1.04,343,0.654598985,0.991,870,0.858502463 ERALPHAPS118,ESR1,0.961,343,0.030242553,0.928,870,1.69E-09 ERK2,MAPK1,0.97,377,0.206,0.832,956,3.09E-28 ETS1,ETS1,0.933,346,0.010553538,0.876,820,1.64E-14 FASN,FASN,1.74,808,9.18E-45,1.07,432,0.141294872 FIBRONECTIN,FN1,1.04,442,0.218261905,1.15,462,2.03E-07 FOXM1,FOXM1,1.29,854,1.90E-54,1.03,300,0.141707006 FOXO3A,FOXO3,1.05,326,1.63E-05,0.944,888,2.51E-17 FOXO3APS318S321,FOXO3,1.01,326,0.152880503,1,888,0.954634146 G6PD,G6PD,1.03,581,0.148267516,0.957,455,0.012914615 GAB2,GAB2,1.23,609,1.70E-14,0.859,446,5.59E-12 GAPDH,GAPDH,1.32,838,3.43E-09,0.488,311,6.55E-45 GATA3,GATA3,1.03,619,0.442228261,0.898,578,0.001490881 GSK3ALPHABETA,GSK3B,1.03,791,4.96E-05,0.934,346,2.95E-12 GSK3ALPHABETA,GSK3A,1.04,567,0.000351284,0.978,502,0.016882707 GSK3ALPHABETAPS21S9,GSK3A,1.01,567,0.60092228,0.843,502,2.08E-12 GSK3ALPHABETAPS21S9,GSK3B,0.866,791,3.96E-12,1.01,346,0.620179894 GSK3PS9,GSK3B,0.962,791,0.079262252,0.944,346,0.025046043 GSK3PS9,GSK3A,0.938,567,0.007291746,0.953,502,0.067482759 HER2,ERBB2,1.56,641,1.50E-40,0.851,645,4.60E-26 HER2PY1248,ERBB2,1.25,641,7.65E-15,0.798,645,5.52E-37 HER3,ERBB3,1.08,660,2.00E-05,0.936,292,0.002026774 HER3PY1298,ERBB3,0.966,660,9.59E-05,0.991,292,0.459988636 HEREGULIN,NRG1,0.969,443,0.00698752,0.974,1244,0.001211138 HSP70,HSPA1A,0.951,638,0.058041892,0.977,428,0.491668508 IGFBP2,IGFBP2,1.16,440,0.000608374,0.934,464,0.06970137 INPP4B,INPP4B,1.21,204,0.004518151,0.845,904,1.36E-10 IRS1,IRS1,1.01,406,0.314852273,0.992,512,0.58588172 JNK2,MAPK9,1.06,693,1.27E-08,0.83,658,6.66E-45 JNKPT183Y185,MAPK8,0.995,387,0.692532663,1.07,699,2.15E-10 KU80,XRCC5,1.08,440,5.15E-06,0.985,460,0.358682353 LCK,LCK,0.934,372,2.92E-05,0.96,685,0.001486017 LKB1,STK11,1.04,306,3.29E-06,0.917,1009,2.05E-42 MAPKPT202Y204,MAPK1,0.919,377,0.024058394,1.01,956,0.7416 MAPKPT202Y204,MAPK3,1.02,827,0.405171271,1.01,340,0.848475248 MEK1,MAP2K1,1.12,277,2.80E-08,0.894,866,6.80E-16 MEK1PS217S221,MAP2K1,0.982,277,0.418754098,0.967,866,0.00804381 MIG6,ERRFI1,0.948,321,2.86E-06,0.941,878,6.14E-11 MRE11,MRE11A,1.01,432,0.076494667,0.998,676,0.814683417 MTOR,MTOR,1.12,315,7.05E-13,0.969,853,0.000674182 MTORPS2448,MTOR,1.07,315,2.10E-12,0.985,853,0.027904965 MYH11,MYH11,0.813,808,0.000255802,0.601,369,2.97E-11 MYOSINIIAPS1943,MYH9,1.07,307,0.000197531,0.963,1076,0.000800089 NCADHERIN,CDH2,0.98,399,0.314852273,0.937,960,7.67E-08 NDRG1PT346,NDRG1,0.753,1530,9.82E-13,1.07,147,0.598171123 NF2,NF2,1.06,354,0.000592495,0.814,985,2.22E-98 NFKBP65PS536,NFKB1,1.13,181,0.004566333,1.09,918,3.66E-05 NOTCH1,NOTCH1,1.02,415,0.303578947,0.923,848,1.29E-18 NRAS,NRAS,0.985,400,0.206,0.954,606,4.96E-08 P21,CDKN1A,1.05,609,2.51E-06,1.02,435,0.098022819 P27,CDKN1B,0.994,748,0.567042105,0.936,388,1.45E-07 P27PT157,CDKN1B,1.01,748,0.314852273,1,388,0.814683417 P27PT198,CDKN1B,1.02,748,0.02781,1.04,388,3.44E-07 P38MAPK,MAPK14,1.06,596,4.91E-12,0.945,441,5.06E-08 P38PT180Y182,MAPK14,0.93,596,0.00048822,0.933,441,0.00165481 P53,TP53,1.22,160,1.45E-08,1.13,1400,2.51E-18 P62LCKLIGAND,SQSTM1,1.2,693,3.27E-15,0.961,655,0.025046043 P70S6K,RPS6KB1,1.24,783,4.36E-51,0.886,421,4.83E-33 P70S6KPT389,RPS6KB1,1.02,783,0.273858824,1.09,421,2.97E-07 P90RSK,RPS6KA1,0.982,255,0.314852273,0.871,909,2.40E-43 P90RSKPT359S363,RPS6KA1,1.03,255,0.098018301,0.986,909,0.114186755 PAI1,SERPINE1,1.16,1085,1.75E-09,1.07,233,0.102588 PAXILLIN,PXN,1.06,570,0.000874564,0.937,438,0.000582092 PCADHERIN,CDH3,1.01,401,0.591177083,1.05,1019,1.90E-13 PCNA,PCNA,1.06,1059,8.24E-10,0.977,354,0.086854054 PDCD4,PDCD4,1.19,297,2.62E-07,0.762,900,4.21E-35 PDK1,PDK1,0.964,574,2.68E-06,1.02,291,0.160367089 PDK1PS241,PDK1,0.916,574,2.86E-12,0.993,291,0.701253886 PEA15,PEA15,0.988,1362,0.314852273,0.885,96,1.42E-06 PEA15PS116,PEA15,0.788,1362,2.78E-21,1.19,96,0.129928105 PI3KP110ALPHA,PIK3CA,1.13,1128,1.46E-36,0.862,191,4.35E-14 PI3KP85,PIK3R1,1.03,356,0.026972662,0.907,947,4.12E-28 PI3KP85,PIK3R2,0.957,628,2.23E-05,0.926,466,4.65E-10 PKCALPHA,PRKCA,0.831,800,8.06E-23,0.743,406,1.63E-41 PKCALPHAPS657,PRKCA,0.893,800,3.45E-10,0.858,406,1.39E-14 PKCDELTAPS664,PRKCD,1.03,247,0.036446154,0.955,1190,3.94E-10 PKCPANBETAIIPS660,PRKCA,0.939,800,0.000129155,0.955,406,0.024509489 PKCPANBETAIIPS660,PRKCB,0.943,789,0.000266457,0.97,382,0.199522013 PKCPANBETAIIPS660,PRKCD,1.07,247,0.010475659,0.965,1190,0.016542424 PKCPANBETAIIPS660,PRKCE,0.966,667,0.043918056,0.88,213,2.23E-06 PKCPANBETAIIPS660,PRKCH,0.948,342,0.01810303,1.03,928,0.052501389 PKCPANBETAIIPS660,PRKCQ,0.932,626,1.63E-05,1.14,572,2.18E-09 PR,PGR,1,442,0.76838,1.03,700,0.001601261 PRAS40PT246,AKT1S1,0.987,549,0.338677966,0.956,563,1.22E-06 PRDX1,PRDX1,1.1,468,3.55E-10,0.923,526,5.45E-12 PTEN,PTEN,1.02,280,0.398266667,0.91,926,2.64E-12 RAB11,RAB11A,0.957,265,0.022888889,0.895,871,7.89E-26 RAB11,RAB11B,0.925,487,2.24E-08,0.88,707,1.83E-30 RAB25,RAB25,1.29,1377,6.57E-41,1.01,111,0.811451777 RAD50,RAD50,1.02,554,0.217101796,0.953,770,0.00781152 RAD51,RAD51,1.01,177,0.410868132,0.976,1025,0.001909268 RAPTOR,RPTOR,1.08,810,1.75E-14,0.941,385,6.38E-07 RBM15,RBM15,1.13,373,2.85E-05,0.992,634,0.717814433 RBPS807S811,RB1,1.06,457,0.024331884,1.02,1044,0.217515528 RICTOR,RICTOR,1.07,977,0.005673443,1.08,226,0.232539877 RICTORPT1135,RICTOR,1.02,977,0.000422404,0.976,226,0.048690909 S6,RPS6,1.08,423,0.000489505,0.981,1001,0.286179641 S6PS235S236,RPS6,1.05,423,0.073966443,1.06,1001,0.001683459 S6PS240S244,RPS6,1.05,423,0.04910137,1.1,1001,1.74E-07 SCD1,SCD,0.999,283,0.945590244,0.996,918,0.701253886 SF2,SRSF1,0.987,722,0.117619355,1,460,0.83739 SHCPY317,SHC1,0.975,1375,0.009559688,1.02,102,0.607042553 SMAD1,SMAD1,1.09,203,5.30E-06,0.948,913,1.01E-10 SMAD3,SMAD3,0.998,274,0.924463054,0.916,878,8.79E-18 SMAD4,SMAD4,1,273,0.945176471,0.93,1201,1.25E-34 SRC,SRC,1.17,1317,1.80E-45,0.861,122,4.49E-07 SRCPY416,SRC,1.07,1317,0.000536788,0.991,122,0.848475248 SRCPY527,SRC,1.04,1317,0.051990476,0.861,122,0.001028209 STAT3PY705,STAT3,1.01,504,0.352156425,0.962,745,0.000547426 STAT5ALPHA,STAT5A,1.14,500,1.04E-07,1.07,749,0.000481308 STATHMIN,STMN1,1.05,263,0.00010815,0.964,889,5.23E-07 SYK,SYK,1.11,356,0.001658842,0.934,828,0.000972175 TAZ,WWTR1,0.996,989,0.629680412,1.04,229,0.025308571 TIGAR,C12ORF5,1,839,0.783207921,0.965,313,0.125903947 TRANSGLUTAMINASE,TGM2,0.902,1311,4.26E-08,0.868,132,0.000450868 TFRC,TFRC,1.31,1064,1.03E-19,0.781,268,1.19E-08 TSC1,TSC1,0.986,385,0.47955914,1.01,853,0.6798 TUBERIN,TSC2,1.04,794,0.001574429,0.966,471,0.046712676 TUBERINPT1462,TSC2,1.02,794,0.082128947,0.93,471,1.02E-07 VEGFR2,KDR,0.962,352,0.142615385,1.05,635,0.012567597 VHL,VHL,1.21,391,0.001642531,1.07,1023,0.132903226 XBP1,XBP1,0.946,348,1.96E-05,0.989,999,0.253442424 XRCC1,XRCC1,1.06,569,3.90E-08,0.959,505,1.38E-05 YAP,YAP1,1.1,448,5.72E-09,0.894,713,2.78E-26 YAPPS127,YAP1,1.2,448,1.16E-13,0.742,713,6.22E-66 YB1,YBX1,1.04,499,0.005567107,1.09,519,6.00E-07 YB1PS102,YBX1,0.994,499,0.562412698,0.946,519,6.25E-10