TCGA_ID Days_Death Days_Followup tumor.grade tumor.stage Tumor_Stage Platinum-Based_Chemotherapy Sample_Volume_(cc) Slide_Percent_Tumor_Cells Slide_Percent_Tumor_Nuclei Portion_Weight_(mg) Analyte_DNA_Concentration_(ug/mL) Aliquot_DNA_Concentration_(ug/mL) probelet.1 Tumor_Sequencer probelet.138 Normal_Sequencer 6p+12p.WGS.LUAD.coeff 6p+12p_WGS_LUAD_(Coeff.) 6p+12p.WGS.LUAD.corr 6p+12p_WGS_LUAD_(Corr.) 6p+12p.Agilent.OV.corr 6p+12p_Agilent_OV_(Corr.) 6p+12p_Agilent_OV/Stage TNF HLA-DQB1 MAPK14 MIR200C MIR141 RAD51AP1 KRAS ASUN TCGA-05-4249 Null 1158 Null IB I Null 0.448 80 80 111 0.15 0.15 0.106334142 Other -0.130185823 Other -0.093083434 Low 0.028793495 Low -0.398784774 Low Low/I 221.5062 10347.0452 2036.6982 6419.264085 873.991264 54.4107 4618.1473 280.1024 TCGA-05-4250 121 Null Null IIIA II-IV Null 0.252 84.5 85 126 0.15 0.15 0.090922762 Other 0.109366001 HMS/SN1120 0.214709645 Low 0.354564227 High -0.045452267 Low Low/II-IV 16.9112 3399.1544 1916.9361 3495.637027 1594.265567 214.2087 4723.2032 1574.7327 TCGA-05-4382 Null 607 Null IB I Null 0.216 Null 70 122 0.14 0.14 0.156641138 HMS/SN1120 0.087916192 HMS/SN1120 0.362699713 High 0.264943968 Low -0.113353293 Low Low/I 46.6643 12579.9799 1597.1159 9164.861755 1996.683475 209.3911 1599.7483 655.4541 TCGA-05-4384 Null 426 Null IIIA II-IV Yes 0.256 72.5 70 113 0.15 0.15 0.12669919 HMS/SN1120 0.07467876 Other 0.205994572 Low 0.283467916 Low -0.198225388 Low Low/II-IV 75.1374 621.2584 1622.4801 9166.375784 1408.158987 73.9157 1329.2608 378.7416 TCGA-05-4389 Null 1369 Null IA I Null 0.351 82 75 142 0.14 0.14 0.105825224 HMS/SN1120 0.11067845 HMS/SN1120 0.25160317 Low 0.258446369 Low 0.033486214 Low Low/I 80.8725 5426.5101 2150 19556.9299 2775.002621 223.8255 1361.0738 620.8054 TCGA-05-4390 Null 1126 Null IB I Yes 0.486 65 75 131 0.14 0.14 0.117550792 HMS/SN1120 0.075185887 HMS/SN1120 0.078586053 Low 0.186810678 Low -0.25286686 Low Low/I 10.2187 1447.8684 1855.9796 9126.890228 1016.014992 218.4257 2207.8876 419.6072 TCGA-05-4395 0 Null Null IIIB II-IV Null 0.16 95 77.5 134 0.14 0.095 -0.011565687 Other 0.111800912 HMS/SN1120 0.793628891 High 0.829637607 High 0.629094589 High High/II-IV 7.2479 2318.2461 1379.7806 30142.5598 5614.488923 494.1977 3050.2815 2043.9006 TCGA-05-4396 303 Null Null IIIB II-IV Null 0.72 Null Null 37 0.16 0.105 -0.038012645 Other 0.075933302 HMS/SN1120 -0.063151204 Low 0.027978271 Low -0.07477489 Low Low/II-IV 21.9864 2355.5724 1698.2563 21454.24368 3699.014751 72.0243 3103.1084 303.26 TCGA-05-4397 731 Null Null IIB II-IV Null 0.405 Null 75 117 0.14 0.14 0.127010348 HMS/SN1120 0.108773475 HMS/SN1120 0.041539784 Low 0.121433218 Low -0.299809399 Low Low/II-IV 12.5897 1811.8167 1827.4986 8397.16321 3055.454322 363.556 950.4141 390.5025 TCGA-05-4398 Null 1431 Null IIIB II-IV Yes 0.54 Null 72.5 141 0.15 0.15 0.117593569 Other 0.124344459 Other 0.338713849 Low 0.322019661 Low -0.123991111 Low Low/II-IV 146.368 4325.1414 1760.3306 18004.07786 5290.214197 510.4393 1223.5755 490.4306 TCGA-05-4402 244 Null Null IV II-IV Yes 0.192 Null 70 123 0.14 0.14 -0.091704606 Other -0.069332976 Other 0.025614402 Low 0.031707415 Low 0.187756928 Low Low/II-IV 35.4666 3371.0115 2506.5444 13894.0573 2793.222206 187.9486 1464.7446 489.2937 TCGA-05-4403 Null 578 Null IB I Null 0.6 80 70 114 0.15 0.15 -0.084155427 Other -0.076395978 Other -0.13640888 Low -0.111195326 Low 0.053988785 Low Low/I 20.8507 1122.8802 1927.1615 5945.506285 2490.137012 82.0128 1346.3998 395.8855 TCGA-05-4405 Null 610 Null IB I Null 0.189 Null Null 36 0.17 0.17 -0.052872365 Other -0.087078731 Other -0.59722994 Low -0.600289045 Low -0.411872973 Low Low/I 18.5537 4098.3742 1875.909 5943.422409 755.633108 60.9621 1144.3642 329.3277 TCGA-05-4410 Null 0 Null IB I Null 0.32 Null Null 27 0.16 0.16 -0.092269687 Other 0.095781333 HMS/SN1120 -0.279614971 Low -0.270655825 Low 0.007728762 Low Low/I 37.4618 12120.7951 1576.4526 5619.052416 1306.640301 118.5015 1186.5443 425.0765 TCGA-05-4415 91 Null Null IIIB II-IV Null 0.44 Null Null 33 0.14 0.14 -0.08606688 Other 0.095598883 HMS/SN1120 0.627242703 High 0.580416719 High 0.582444758 High High/II-IV 6.2222 497.7778 1450.6667 737.506276 132.5907 259.5556 3100.4444 1503.5556 TCGA-05-4417 Null 455 Null IB I Null 0.336 Null Null 35 0.16 0.16 -0.097283926 Other 0.094093478 HMS/SN1120 0.284649344 Low 0.353963612 High 0.297546229 Low Low/I 34.3104 10517.4205 1356.5331 13039.19809 2643.897321 192.5197 3154.0189 541.3425 TCGA-05-4418 274 Null Null IIIA II-IV Null 0.48 Null 70 115 0.15 0.15 -0.075808087 Other -0.058043195 Other 0.177441055 Low 0.195381427 Low 0.276572863 Low Low/II-IV 25.9244 5405.5671 1956.9589 26791.66337 4832.723838 330.3698 1347.071 756.7927 TCGA-05-4420 Null 912 Null IB I Null 0.192 82.5 77.5 124 0.16 0.16 0.112626979 Other 0.102023533 Other -0.029698183 Low 0.055833253 Low -0.365684844 Low Low/I 16.3029 402.8399 2999.2111 29648.21617 4062.757588 498.5538 1457.0076 529.5819 TCGA-05-4422 Null 365 Null IB I Null 0.48 89 70 123 0.15 0.15 0.104199704 Other 0.120302247 Other 0.159617502 Low 0.25651053 Low -0.177610581 Low Low/I 27.7017 6926.3318 1622.2222 22499.78582 4285.124958 182.9528 1385.6925 392.3896 TCGA-05-4424 Null 913 Null IIB II-IV Null 0.352 Null Null 29 0.14 0.14 -0.06206726 HMS/SN1120 0.11263294 HMS/SN1120 -0.061558574 Low -0.024076627 Low -0.097147861 Low Low/II-IV 34.795 10459.0086 1126.3108 10374.67913 925.372035 279.7903 2608.6749 621.0677 TCGA-05-4425 Null 669 Null IV II-IV Yes 0.33 67.5 70 131 0.15 0.15 0.119703111 HMS/SN1120 0.062530952 HMS/SN1120 -0.045083835 Low 0.056605284 Low -0.362358014 Low Low/II-IV 31.3374 16337.437 2035.2546 4536.031695 579.826963 116.3962 1855.624 533.296 TCGA-05-4426 Null 791 Null IB I Null 0.675 89 75 133 0.14 0.14 -0.006268951 Other -0.049112799 Other -0.376871003 Low -0.441430019 Low -0.426413766 Low Low/I 26.0837 5791.7747 2255.3538 9557.639638 2207.652087 140.4965 559.3183 520.1927 TCGA-05-4427 Null 791 Null IIB II-IV Yes 0.306 Null Null 34 0.17 0.17 -0.084467589 Other 0.083829471 HMS/SN1120 -0.096146865 Low -0.070766549 Low -0.069748766 Low Low/II-IV 15.6408 2630.6761 2709.3845 5829.17108 1485.69994 162.9667 2921.7962 411.2008 TCGA-05-4430 Null 761 Null IB I Null 0.288 70 75 125 0.15 0.15 -0.042256528 Other -0.0675506 Other -0.417430606 Low -0.383359906 Low -0.274520766 Low Low/I 54.2265 16618.1818 3925.0399 6259.097604 1250.206351 114.8325 1844.0191 586.6029 TCGA-05-4432 Null 761 Null IIB II-IV Yes 0.21 85 75 158 0.14 0.14 0.013780286 Other 0.008701569 Other 0.032055393 Low 0.103077027 Low -0.020897343 Low Low/II-IV 56.8215 5521.7768 1284.6842 4498.055173 1388.445116 152.5815 1405.8264 466.109 TCGA-05-4433 Null 730 Null IB I Null 0.33 Null Null 40 0.16 0.16 0.089951589 HMS/SN1120 0.09592079 HMS/SN1120 0.172944156 Low 0.32705928 Low -0.089576898 Low Low/I 43.8017 4802.4793 1857.8512 19374.20162 3256.912972 138.0165 3184.2975 445.4545 TCGA-05-4434 457 Null Null IV II-IV Null 0.312 64 72.5 122 0.15 0.15 0.012214084 Other 0.098399243 Other -0.714187888 Low -0.717232324 Low -0.70647875 Low Low/II-IV 52.227 10745.4217 1657.6984 4514.230112 1279.233573 368.7542 1373.2761 548.4965 TCGA-05-5429 Null 30 Null IIIA II-IV Null 0.27 95 80 109 0.17 0.11 0.085264625 Other 0.086854514 Other 0.096819812 Low 0.200086687 Low -0.230599793 Low Low/II-IV 58.778 1664.3465 1668.9869 12550.94091 1540.449079 358.082 1105.1817 736.2722 TCGA-05-5715 Null 62 Null IB I Null 0.324 88.5 72.5 62 0.15 0.15 0.07889724 Other 0.099719007 HMS/SN1120 0.086123826 Low 0.209933703 Low -0.223095368 Low Low/I 3.1232 1067.3434 1438.2198 10643.79395 1609.347626 130.3923 1683.3886 363.0685 TCGA-35-4122 Null 225 Null IA I Null 0.35 82 75 120 0.15 0.15 0.099321358 Other 0.104984795 Other 0.128826673 Low 0.282568672 Low -0.175046547 Low Low/I 149.7487 1972.8643 2387.9397 3812.802974 1684.274801 1133.1658 1498.4925 956.7839 TCGA-35-4123 Null 182 Null IA I Null 0.108 75 72.5 124 0.16 0.16 0.096615535 Other 0.06537198 Other 0.148986454 Low 0.268350722 Low -0.157810037 Low Low/I 131.7326 5931.4815 1894.3153 13311.34087 2142.075825 516.831 1309.4224 823.329 TCGA-38-4628 1492 Null Null IIB II-IV Yes 0.08 82 75 94 0.13 0.13 0.070034329 Other -0.013174456 HMS/SN1120 0.042485971 Low 0.157863313 Low -0.205031446 Low Low/II-IV 12.9583 7035.3982 2013.5904 8720.075493 1931.05233 316.3717 1195.3224 313.2111 TCGA-38-4629 864 Null Null IIB II-IV Null 0.26 75 70 62 0.14 0.14 0.118043439 HMS/SN1120 -0.05467925 Other 0.176076878 Low 0.287661617 Low -0.192331185 Low Low/II-IV 9.9758 15434.0992 1649.3349 Null Null 290.2056 808.948 629.6856 TCGA-38-4630 1073 Null Null IB I Null 0.384 80 80 133 0.15 0.05 0.088705649 Other 0.026458646 Other -0.091515098 Low 0.0240464 Low -0.432222897 Low Low/I 385.996 2132.7277 1328.6062 Null Null 631.0658 1337.248 451.1411 TCGA-38-4631 354 Null Null IB I Null 0.112 83.5 80 109 0.15 0.15 0.113429794 HMS/SN1120 0.091589522 HMS/SN1120 0.331500187 Low 0.413702154 High -0.024545803 Low Low/I 36.0989 4021.8869 1257.9678 7906.093454 1040.20018 285.6521 1565.5931 769.0633 TCGA-38-4632 1357 Null Null IV II-IV Yes 0.168 81.5 70 137 0.15 0.15 0.116789514 HMS/SN1120 0.111001669 HMS/SN1120 0.334831858 Low 0.426141508 High -0.052292563 Low Low/II-IV 54.2917 4838.0807 1740.3938 8427.745536 880.581707 711.1451 863.3149 497.8016 TCGA-38-6178 Null 158 Null IIIA II-IV Yes 0.27 Null Null 35 0.14 0.14 0.041468547 Other -0.093622332 Other -0.426526963 Low -0.393832059 Low -0.575102723 Low Low/II-IV 6.2402 6218.4087 2179.4072 7270.52253 687.884423 96.7239 1176.2871 439.1576 TCGA-44-2656 Null 582 Null IB I Null 0.256 85 80 113 0.14 0.07 -0.03154994 Other -0.003290611 Other -0.332340939 Low -0.303252178 Low -0.231620712 Low Low/I 11.6516 4333.294 1515.2439 3053.532154 827.161547 105.6769 1094.1622 579.0551 TCGA-44-2659 Null 529 Null IIB II-IV Yes 0.312 62.5 67.5 105 0.15 0.15 0.086717574 Other 0.061553554 Other -0.1854067 Low -0.094687944 Low -0.416052869 Low Low/II-IV 72.2458 9193.8542 2373.3246 5131.438379 2068.39784 73.5534 1232.7558 393.5927 TCGA-44-2661 Null 103 Null IA I Null 0.42 91.5 72.5 157 0.15 0.15 0.097098466 Other -0.159679711 Other 0.037636864 Low 0.149193083 Low -0.237850605 Low Low/I 109.5101 42087.8963 2032.6609 Null Null 135.927 989.9135 323.7272 TCGA-44-2665 Null 400 Null IIB II-IV Yes 0.198 80 81.5 135 0.15 0.15 0.070152078 Other -0.045680356 Other 0.080186855 Low 0.212007002 Low -0.147283176 Low Low/II-IV 41.7457 2061.1954 1755.2182 Null Null 119.5446 1222.0114 490.038 TCGA-44-2666 97 97 Null IB I Null 0.7 89 87.5 143 0.15 0.115 0.060751221 Other -0.008040286 Other -0.467921038 Low -0.448578623 Low -0.576773022 Low Low/I 8.7582 3556.6677 1907.2047 3725.587153 1301.43377 48.7957 758.6279 320.7173 TCGA-44-2668 Null 246 Null IB I Null 0.36 75 77.5 173 0.14 0.07 -0.062859414 Other 0.045396983 Other 0.174167352 Low 0.220169081 Low 0.261407948 Low Low/I 1488.3657 4814.1931 1857.3866 Null Null 352.3712 1806.073 738.8605 TCGA-44-3396 Null 311 Null IIIA II-IV Yes 0.52 77.5 67.5 108 0.15 0.15 0.009437929 Other 0.090286042 Other -0.04696309 Low 0.046993098 Low -0.175664538 Low Low/II-IV 415.3054 10273.8868 2158.4247 Null Null 159.991 874.6923 241.6648 TCGA-44-3917 Null 392 Null IB I Null 0.144 95.5 80 107 0.15 0.08 -0.041499099 Other 0.016678442 Other -0.108352329 Low -0.05412578 Low -0.150461632 Low Low/I Null Null Null Null Null Null Null Null TCGA-44-3918 Null 197 Null IA I Yes 1.28 90 75 125 0.16 0.12 0.093106831 Other 0.100150833 Other -0.051974078 Low 0.058796621 Low -0.359017688 Low Low/I 137.2998 17338.2914 2469.1076 3672.950083 731.093131 186.1175 1260.4882 381.0069 TCGA-44-3919 Null 190 Null IA I Null 0.072 100 80 94 0.15 0.15 0.09880082 Other 0.11085216 Other 0.128914855 Low 0.237214939 Low -0.205738378 Low Low/I 107.6423 14239.3496 2045.2033 10152.42453 2839.181048 164.878 1337.8862 382.7642 TCGA-44-4112 Null 141 Null IB I Yes 0.8 57.5 80 153 0.15 0.115 0.09346721 HMS/SN1120 0.144533015 HMS/SN1120 0.212924255 Low 0.172779052 Low -0.087531886 Low Low/I 16.4659 1467.0683 2271.4859 11287.62214 1778.601659 189.9598 1902.008 328.9157 TCGA-44-5643 Null 106 Null IIIA II-IV Yes 0.768 78.5 75 62 0.15 0.15 -0.012069927 HMS/SN1120 0.076246644 HMS/SN1120 0.70809761 High 0.782436742 High 0.643529106 High High/II-IV 15.2113 1599.4366 861.9718 57575.50807 6458.060419 1324.507 5670.4225 2714.9296 TCGA-44-5645 Null 208 Null IA I Null 0.312 72.5 67.5 61 0.16 0.12 4.21E-05 Other 0.003353504 Other -0.023118734 Low -0.005067334 Low -0.052544375 Low Low/I 113.0235 16893.8612 1576.5921 6875.652875 941.322096 76.3052 1051.0614 334.4808 TCGA-44-6144 Null 9 Null IA I Null 0.216 Null Null 28 0.16 0.16 -0.094693957 Other -0.107681998 Other -0.388248 Low -0.388387679 Low -0.182790536 Low Low/I Null Null Null Null Null Null Null Null TCGA-44-6145 Null 103 Null IA I Null 0.75 Null Null 36 0.15 0.15 -0.125767879 Other 0.062834989 Other -0.189766731 Low -0.166710784 Low 0.071782051 Low Low/I 15.1611 3468.0985 2056.8541 15048.03565 1210.541316 228.048 1519.8989 476.9425 TCGA-44-6146 Null 302 Null IIB II-IV Yes 1.28 Null Null 34 0.16 0.12 -0.088541913 Other 0.054638956 Other -0.135584312 Low -0.096330601 Low 0.023386914 Low Low/II-IV 2.7076 166.065 1921.4801 Null Null 47.8339 2511.2816 317.2383 TCGA-44-6147 Null 236 Null IA I Null 0.48 Null Null 35 0.17 0.13 -0.020813277 Other -0.025092376 Other -0.703418359 Low -0.697022516 Low -0.60100906 Low Low/I 12.5683 6989.6175 1593.9891 Null Null 68.8525 1174.3169 291.2568 TCGA-44-6148 Null 96 Null IA I Null 0.48 Null Null 36 0.16 0.105 -0.157569728 Other 0.082517616 Other -0.245371083 Low -0.233734017 Low 0.094207508 Low Low/I 6.4283 5406.1872 1653.1405 16907.8671 911.927283 38.5697 625.1507 323.557 TCGA-44-6774 Null 166 Null IIIA II-IV Yes 0.45 Null Null 37 0.17 0.17 -0.035993158 Other -0.095185093 Other -0.400896536 Low -0.357513446 Low -0.332953883 Low Low/II-IV 52.0446 1383.829 1931.2268 3630.136098 317.269981 123.6059 1122.6766 384.7584 TCGA-44-6775 Null 83 Null IB I Null 0.242 Null Null 38 0.16 0.12 -0.092536626 Other -0.028299515 Other -0.268926123 Low -0.229908836 Low -0.074651257 Low Low/I 14.6391 7729.4296 1753.6598 Null Null 168.6017 1046.4412 327.6123 TCGA-44-6776 Null 1938 Null IA I Null 0.525 Null Null 40 0.15 0.15 -0.032114815 Other 0.037841765 Other -0.443958052 Low -0.433618424 Low -0.537769784 Low Low/I 2.1552 3514.3678 1617.0977 Null Null 36.6379 2285.2011 436.7816 TCGA-44-6777 987 Null Null IB I Null 0.72 Null Null 28 0.15 0.15 -0.116060447 Other -0.101263667 Other -0.225089233 Low -0.226148335 Low 0.029961728 Low Low/I 92.0568 16688.0589 1690.6891 Null Null 91.5308 1355.0763 480.7996 TCGA-44-6778 Null 1110 Null IA I Null 0.72 Null Null 29 0.15 0.15 0.092929418 HMS/SN1120 0.112432432 HMS/SN1120 -0.043203173 Low 0.072201546 Low -0.339415972 Low Low/I 50.7614 14468.2741 1424.4924 Null Null 260.1523 1445.4315 412.4365 TCGA-44-6779 500 Null Null IIB II-IV Yes 0.35 Null Null 27 0.15 0.15 -0.061299008 HMS/SN1120 0.078950782 HMS/SN1120 0.311502011 Low 0.378496268 High 0.248027856 Low Low/II-IV 5.5788 2723.2516 1854.5527 11202.10244 1980.68518 274.1582 1330.1454 518.8285 TCGA-49-4486 2318 Null Null IA I Null 0.576 94 75 117 0.14 0.14 0.090175753 Other 0.078908764 Other 0.07004533 Low 0.207813162 Low -0.223721945 Low Low/I 1.9949 1791.7897 1109.1873 17504.09882 3855.711912 53.1984 1008.4428 459.169 TCGA-49-4488 869 Null Null IA I Null 0.64 86 60 148 0.14 0.14 0.116316903 Other 0.114996522 Other 0.020671042 Low 0.135967118 Low -0.271036693 Low Low/I 165.8411 6317.373 2698.2205 10142.36539 913.49945 147.4959 2214.6395 669.9688 TCGA-49-4494 1081 Null Null IIIA II-IV Null 1 70 70 110 0.16 0.16 0.094813522 Other 0.094007553 Other 0.076632665 Low 0.213617852 Low -0.280173592 Low Low/II-IV 20.1604 5442.1807 1147.157 6521.869798 2294.501988 218.6413 1002.3426 383.3322 TCGA-49-4501 1421 Null Null IB I Null 0.216 77.5 72.5 109 0.14 0.14 0.087724493 Other 0.073916853 Other -0.024418558 Low 0.08852646 Low -0.307743349 Low Low/I 13.4742 2951.1229 2206.3408 6737.504083 1239.525838 52.8402 1206.605 318.8904 TCGA-49-4505 428 Null Null IIB II-IV Null 0.315 85 72.5 133 0.14 0.14 0.010649791 Other 0.031864492 Other -0.039043503 Low 0.027064879 Low -0.108761656 Low Low/II-IV 35.3635 4901.2068 1893.629 11169.87978 1342.415452 75.2175 1580.1291 332.3042 TCGA-49-4506 999 Null Null IIB II-IV Null 0.096 95 72.5 120 0.13 0.13 0.022773474 Other 0.006556028 Other -0.017955163 Low 0.078911263 Low -0.136964979 Low Low/II-IV 9.5513 1882.0018 2004.5767 14308.18707 4803.471392 341.0606 1203.4623 1301.761 TCGA-49-4507 268 Null Null IIIA II-IV Yes 0.21 95 70 102 0.14 0.14 0.063609712 Other 0.068878289 Other 0.211642698 Low 0.352600882 High -0.032502098 Low Low/II-IV 8.6475 10539.6057 1080.5949 14139.50749 4168.139576 374.9568 659.9792 492.909 TCGA-49-4510 896 Null Null IIB II-IV Null 0.189 95 75 130 0.14 0.14 0.015715769 Other 0.091990944 Other 0.214765434 Low 0.314246035 Low 0.061437449 Low Low/II-IV 7.3436 7638.5696 1715.5172 20602.79011 4721.564412 50.447 1361.1111 228.9272 TCGA-49-4512 905 157 Null IIIA II-IV Null 0.528 Null Null 31 0.15 0.1 -0.144233723 Other 0.037139106 Other 0.042576617 Low 0.032942673 Low 0.291523387 Low Low/II-IV 24.5965 7707.1483 981.5527 5154.775269 626.110497 53.8048 1493.4666 417.3713 TCGA-49-6743 Null 369 Null IIIA II-IV Yes 0.192 Null Null 38 0.14 0.14 -0.112165239 Other -0.128995953 Other -0.414730693 Low -0.410523011 Low -0.102054847 Low Low/II-IV 73.7927 1010.8519 1542.051 Null Null 243.0819 1142.1595 347.2599 TCGA-49-6744 Null 890 Null IIA II-IV Null 0.525 Null Null 38 0.15 0.15 -0.139431479 Other -0.115348182 Other -0.105999247 Low -0.114531816 Low 0.222412398 Low Low/II-IV 37.6782 16898.6762 1618.6354 Null Null 110.4888 1423.1161 403.7678 TCGA-49-6745 Null 156 Null IIIA II-IV Null 0.231 Null Null 26 0.15 0.15 -0.148816976 Other -0.114297048 Other 0.474748126 High 0.157990246 Low 0.42867076 High High/II-IV 8.8452 1866.8305 1355.774 Null Null 167.0762 6439.312 1070.2703 TCGA-49-6767 Null 0 Null IIB II-IV Null 0.3 Null Null 40 0.14 0.14 -0.086700399 Other -0.035835823 Other 0.067191123 Low 0.075227766 Low 0.184418595 Low Low/II-IV 75.7396 6141.4201 1769.8225 10199.41689 1643.740889 476.9231 1455.0296 1018.9349 TCGA-50-5049 Null 1485 Null IA I Null 0.9 57 62.5 136 0.16 0.16 -0.09569398 Other 0.086389437 Other -0.140222697 Low -0.09917401 Low 0.017929062 Low Low/I 39.6205 7853.2366 1772.8795 5366.407949 479.169966 223.7723 965.4018 565.2902 TCGA-50-5051 Null 455 Null IIIA II-IV Yes 0.48 Null Null 29 0.15 0.15 0.117094284 Other 0.076696373 Other 0.179709073 Low 0.26075226 Low -0.223224944 Low Low/II-IV 30.9837 441.5182 893.8807 7392.247104 1027.072389 67.3896 1193.6483 317.5833 TCGA-50-5055 Null 785 Null IIA II-IV Yes 0.285 55 47.5 97 0.17 0.17 -0.062892491 Other -0.031023649 Other -0.08809654 Low -0.048645443 Low -0.008162052 Low Low/II-IV 164.4518 30128.7375 1322.2591 10815.8225 1394.664344 136.2126 1046.5116 396.1794 TCGA-50-5066 Null 297 Null IB I Yes 0.3 82.5 65 114 0.14 0.05 0.096218615 Other -0.122109299 Other 0.150104091 Low 0.110877391 Low -0.163893811 Low Low/I 60.9756 1700.3484 2348.4321 Null Null 546.1672 1442.5087 1480.8362 TCGA-50-5930 282 Null Null IIIA II-IV Null 0.48 Null Null 34 0.16 0.105 -0.050141753 Other -0.03284436 Other -0.172367083 Low -0.0758473 Low -0.211402386 Low Low/II-IV 1.3281 2861.9523 1119.5479 Null Null 87.6514 1237.7446 305.452 TCGA-50-5931 434 Null Null IB I Null 0.51 Null Null 31 0.15 0.15 -0.06023172 Other -0.087360737 Other -0.439050817 Low -0.454580175 Low -0.373653541 Low Low/I 13.2576 655.9343 1444.4444 16049.54479 2398.472798 536.6162 1554.2929 609.8485 TCGA-50-5932 1235 1091 Null IIB II-IV Null 0.91 Null Null 31 0.15 0.1 0.035774118 Other -0.014614481 Other -0.467871196 Low -0.467591817 Low -0.678139092 Low Low/II-IV 2.0781 3495.4281 1734.8296 Null Null 113.4663 2446.7997 241.064 TCGA-50-5933 2393 2370 Null IIIB II-IV Yes 0.85 Null Null 28 0.15 0.15 -0.037658463 Other -0.106650487 Other -0.591283739 Low -0.555826901 Low -0.493773569 Low Low/II-IV 26.5337 2116.0592 2127.7953 Null Null 208.1872 1709.3799 411.2717 TCGA-50-5935 653 653 Null IA I Null 0.56 Null Null 36 0.15 0.15 -0.043439333 Other -0.092388446 Other -0.933463391 Low -0.592549643 Low -0.36403996 Low Low/I 34.3785 20353.3344 1445.8061 4205.743685 469.435249 22.919 2864.2368 290.3072 TCGA-50-5939 460 Null Null IB I Null 0.384 Null Null 30 0.15 0.15 0.02579098 Other -0.099140153 Other -0.133003634 Low -0.07195906 Low -0.403081568 Low Low/I 22.5757 5797.1609 1862.1515 17047.80842 1428.142148 97.8279 900.2907 638.276 TCGA-50-5941 Null 285 Null IIIA II-IV Yes 0.3 Null Null 30 0.16 0.16 -0.080671027 Other -0.095783927 Other -0.221776188 Low -0.299299073 Low 0.038991426 Low Low/II-IV 40.3846 35426.2821 3160.2564 15124.44617 1127.924462 229.4872 3282.6923 1035.8974 TCGA-50-5942 Null 136 Null IA I Null 0.21 Null Null 30 0.14 0.14 Null Other Null Null Null Null Null Null -0.576159631 Low Low/I 10.8683 7498.4736 2053.4655 15295.23141 1011.813688 24.2938 671.9154 194.3504 TCGA-50-5944 Null 373 Null IA I Null 0.072 Null Null 32 0.14 0.14 -0.022406994 HMS/SN1120 0.068477185 HMS/SN1120 -0.555572113 Low -0.547974039 Low -0.43767689 Low Low/I 6.7083 4600.0915 2317.4264 16820.66349 1427.731246 98.7955 1313.6149 300.0457 TCGA-50-5946 Null 349 Null IA I Null 0.54 Null Null 25 0.14 0.14 -0.014508485 Other 0.092935196 Other -0.627615151 Low -0.66556972 Low -0.651010033 Low Low/I 12.2226 383.0814 2313.6057 Null Null 521.3895 841.1065 397.8771 TCGA-50-6591 119 Null Null IV II-IV Null 0.504 Null Null 25 0.14 0.095 0.021903472 Other -0.02237767 Other -0.844057018 Low -0.674633891 Low -0.765636358 Low Low/II-IV 3.5842 385.3047 2235.9618 3469.104551 397.785882 193.5484 1225.8065 546.595 TCGA-50-6592 777 Null Null IB I Null 0.6 Null Null 33 0.13 0.13 -0.061555193 Other -0.080738192 Other 0.177194448 Low 0.216687297 Low 0.405773749 High High/I 24.4042 1510.9171 2854.4303 16463.6604 1467.823499 468.8167 2374.0537 942.343 TCGA-50-6593 336 Null Null IIIA II-IV Null 0.42 Null Null 37 0.13 0.13 -0.095922316 HMS/SN1120 -0.082163452 HMS/SN1120 -0.401041289 Low -0.415866265 Low -0.126514414 Low Low/II-IV 29.5061 13822.9634 1458.6273 7604.856194 448.503015 126.3631 1032.0718 357.2803 TCGA-50-6594 370 Null Null IIIA II-IV Null 0.45 Null Null 35 0.13 0.13 -0.005951898 HMS/SN1120 -0.098220583 HMS/SN1120 -0.408536544 Low -0.449646211 Low -0.42923504 Low Low/II-IV 28.169 1482.3944 1053.5211 5745.813571 854.816679 205.6338 1002.8169 369.0141 TCGA-50-6597 Null 1015 Null IB I Null 0.18 Null Null 35 0.15 0.1 -0.131585151 HMS/SN1120 0.058365103 HMS/SN1120 0.029074709 Low 0.031363993 Low 0.462025134 High High/I 25.4477 22141.3761 989.6324 8462.077122 1593.869612 52.7804 670.1225 245.9943 TCGA-55-1594 Null 1178 Null IIIA II-IV Null 0.2 75 90 123 0.14 0.14 -0.066098096 Other -0.079433044 Other 0.041411875 Low 0.085700427 Low -0.080927335 Low Low/II-IV 13.7579 901.3365 2538.9151 15119.9261 3756.431736 619.4969 1829.7956 845.5189 TCGA-55-1596 Null 1375 Null IIB II-IV Yes 0.216 80 85 112 0.13 0.13 -0.053940745 Other 0.012802604 Other -0.125153994 Low -0.03819911 Low -0.073993336 Low Low/II-IV 14.8017 1552.9899 2138.5435 8444.4655 4808.489471 920.071 986.9745 627.5903 TCGA-55-6543 Null 2 Null IA I Null 0.16 Null Null 38 0.15 0.15 -0.089939936 Other 0.084171742 HMS/SN1120 -0.139886507 Low -0.14585387 Low 0.044786693 Low Low/I 23.4114 9707.9153 1230.2118 14576.68327 1246.032571 77.4805 901.8952 336.6778 TCGA-55-6642 Null 993 Null IB I Null 0.36 Null Null 25 0.14 0.14 -0.118158624 Other -0.113654615 Other -0.351649202 Low -0.378388041 Low 0.005091438 Low Low/I 32.1101 2414.1547 1551.114 5488.614696 777.148984 91.0878 2277.8506 557.6671 TCGA-55-6712 Null 24 Null IIA II-IV Yes 0.288 Null Null 33 0.15 0.15 0.047610966 HMS/SN1120 0.102476702 HMS/SN1120 0.380088405 High 0.50049037 High 0.143017772 Low Low/II-IV 4.4813 4078.8707 1358.7273 10246.96431 1669.351211 229.4421 1601.6133 571.8127 TCGA-55-6972 Null 1475 Null IB I Null 0.048 Null Null 37 0.16 0.05 0.02523934 Other -0.006279765 Other -0.056321124 Low -0.03452616 Low -0.425378753 Low Low/I 2.2831 71.9178 1674.6575 38892.23637 8277.868968 85.6164 1234.0183 428.0822 TCGA-55-6982 995 Null Null IIB II-IV Null 0.015 Null Null 35 0.16 0.05 -0.135338723 Other -0.108029713 Other -0.248252489 Low -0.185258545 Low 0.01967043 Low Low/II-IV 29.4999 14166.3978 2450.3342 6488.029346 1366.222169 209.2648 2116.6167 573.404 TCGA-55-6984 760 Null Null IIB II-IV Null 0.048 Null Null 16 0.15 0.05 -0.042969582 Other 0.045556869 Other 0.531963577 High 0.555490986 High 0.394375417 High High/II-IV 54.8446 727.6051 1117.0018 19630.01302 4522.185712 184.6435 2789.7623 613.3455 TCGA-55-6986 Null 2151 Null IB I Null 0.02 Null Null 20 0.16 0.05 -0.096178587 Other -0.074034808 Other -0.577342604 Low -0.545989685 Low -0.277142948 Low Low/I 13.0814 10564.6802 1613.3721 9614.540499 2065.177756 38.5174 800.1453 509.4477 TCGA-55-7281 Null 18 Null IA I Yes 0.006 Null Null 30 0.15 0.05 -0.144319241 Other -0.118492801 Other 0.027194433 Low 0.06003304 Low 0.264049918 Low Low/I 79.2023 6481.4815 1323.0769 6637.34451 847.641187 99.1453 1882.6211 372.6496 TCGA-55-8299 Null 216 Null IA I Null 0.009 Null Null 25 0.17 0.05 -0.082977933 Other 0.0312911 Other -0.315984376 Low -0.20012043 Low -0.176297553 Low Low/I 29.5655 1412.3873 1533.606 4546.481391 783.969875 115.7279 918.6431 468.8247 TCGA-64-1680 Null 1126 Null IV II-IV Null 0.144 77 90 172 0.15 0.15 0.100400194 Other 0.04354859 Other 0.000334972 Low 0.124149091 Low -0.293444773 Low Low/II-IV 2.9895 25252.6158 2040.3587 6061.527237 2525.00304 76.9806 925.2616 416.293 TCGA-64-5774 Null 2550 Null IB I Null 0.168 87 80 69 0.15 0.15 0.064040741 HMS/SN1120 -0.106644662 Other 0.027640313 Low 0.049353304 Low -0.225524913 Low Low/I 31.3524 623.7716 1089.8456 13283.32312 2132.177377 278.4277 1480.1123 484.3238 TCGA-64-5775 62 Null Null IIIA II-IV Yes 0.624 83.5 80 66 0.14 0.14 0.028797562 Other -0.082415259 Other 0.688016007 High 0.791403085 High 0.48972714 High High/II-IV 16.2438 1074.413 1684.2525 73.460735 7.237511 527.2281 1752.0125 2119.587 TCGA-64-5778 Null 926 Null IB I Null 0.192 90 75 63 0.15 0.15 0.093467901 Other -0.093600524 Other -0.213311827 Low -0.122890537 Low -0.468432512 Low Low/I 8.822 26794.6035 1447.852 10345.44986 1275.12784 211.7289 959.5263 479.5037 TCGA-64-5779 Null 507 Null IIIA II-IV Yes 0.52 80 75 60 0.15 0.15 0.087089451 Other -0.069375564 Other -0.023072463 Low 0.089546532 Low -0.305634653 Low Low/II-IV 14.73 541.7349 1701.3093 9360.522066 1013.726905 364.1571 1574.4681 408.347 TCGA-64-5781 Null 1202 Null IB I Yes 0.32 90 75 66 0.15 0.15 0.036695301 Other -0.107176588 Other 0.010840517 Low 0.1011182 Low -0.145420724 Low Low/I 6.4309 828.9389 1505.4662 12873.39436 2166.091536 259.8071 1012.2186 760.1286 TCGA-64-5815 Null 224 Null IIB II-IV Yes 0.128 78.5 75 61 0.14 0.14 0.077232378 HMS/SN1120 -0.112098743 Other 0.212039934 Low 0.250034562 Low -0.068080004 Low Low/II-IV 16.4965 4905.7345 1443.0479 4701.667135 876.864819 112.3331 1644.9332 519.2459 TCGA-67-3771 Null 610 Null IA I Null 0.539 Null 75 111 0.16 0.16 -0.02229225 Other -0.029299265 Other -0.594006736 Low -0.627031607 Low -0.47788024 Low Low/I 11.0749 3397.3941 1590.8795 5618.269844 1611.183781 132.2476 936.8078 271.6612 TCGA-67-3772 Null 573 Null IB I Null 0.162 79 72.5 104 0.13 0.13 -0.085850859 Other -0.098772025 Other -0.339759021 Low -0.263587292 Low -0.14418967 Low Low/I 14.0449 3501.4045 2002.3408 4348.772117 1223.432138 99.2509 1261.7041 416.6667 TCGA-67-6215 Null 162 Null IB I Yes 0.06 Null Null 36 0.14 0.095 -0.061180951 Other 0.06223528 Other -0.4908309 Low -0.482620641 Low -0.139262848 Low Low/I 15.2694 696.0609 1683.7299 13951.4612 1999.984009 115.0791 2483.6971 370.1897 TCGA-67-6216 Null 141 Null IA I Null 0.288 Null Null 30 0.14 0.14 -0.085389032 Other 0.054804172 Other -0.110786737 Low -0.08276973 Low 0.065251724 Low Low/I 34.183 10676.2929 1407.3965 13644.99574 1974.421135 61.2936 1354.3539 387.8002 TCGA-67-6217 Null 422 Null IIA II-IV Null 0.308 Null Null 25 0.13 0.13 0.101919088 Other 0.11706903 Other -0.094622621 Low 0.020758759 Low -0.379718226 Low Low/II-IV 37.5255 5491.2284 1520.3505 9522.384315 1014.83377 28.4284 960.8797 197.293 TCGA-71-6725 Null 61 Null IB I Yes 1.6 Null Null 34 0.14 0.14 0.099494816 HMS/SN1120 0.107828219 HMS/SN1120 0.047763659 Low 0.131563504 Low -0.19550337 Low Low/I 11.2329 17626.0154 1569.8009 10800.3131 1813.515125 71.7659 1296.7785 316.394 TCGA-73-4658 1600 1600 Null IB I Null 0.42 40 50 139 0.15 0.15 0.113907407 Other 0.104957498 Other 0.119820213 Low 0.240556318 Low -0.228622731 Low Low/I 42.0023 5489.0679 1708.8608 3608.102613 739.773015 124.2808 1310.702 478.1358 TCGA-73-4659 711 711 Null IIIA II-IV Yes 0.48 65 85 148 0.15 0.15 0.059693574 Other 0.094404046 Other 0.209260282 Low 0.342972592 Low -0.023439501 Low Low/II-IV 7.384 2927.6371 1458.8608 9113.328638 3351.303597 207.5949 2143.4599 497.8903 TCGA-73-4662 Null 912 Null IA I Null 0.12 75 85 76 0.15 0.15 0.083948046 Other -0.11685234 Other -0.273875793 Low -0.197531414 Low -0.497329632 Low Low/I 42.6654 2762.4685 2604.9347 7100.032632 1355.063043 81.1112 1966.8288 262.5564 TCGA-73-4666 Null 618 Null IV II-IV Yes 0.126 90 92.5 97 0.16 0.16 0.092989252 Other 0.105866954 Other 0.098027705 Low 0.234305662 Low -0.242605367 Low Low/II-IV 23.8949 2617.8708 1709.363 Null Null 543.7968 1175.1242 1025.4669 TCGA-73-4668 Null 467 Null IIB II-IV Yes 0.018 95 80 58 0.15 0.15 0.09371281 Other 0.101670139 Other -0.260552521 Low -0.171045016 Low -0.459666208 Low Low/II-IV 8.6101 2195.08 2751.5375 Null Null 146.6175 4831.4883 1462.4846 TCGA-73-4670 Null 14 Null IV II-IV Yes 0.24 92.5 90 144 0.16 0.16 0.08952785 Other 0.10917601 Other 0.146230814 Low 0.2961669 Low -0.160922064 Low Low/II-IV 260.2159 1545.7155 2842.4218 Null Null 685.5269 2061.5006 1078.5841 TCGA-73-4675 Null 40 Null IIIA II-IV Yes 0.704 50 82.5 141 0.16 0.16 0.074882877 Other 0.104794176 Other 0.420346019 High 0.546976622 High 0.102082449 Low Low/II-IV 8.0545 4297.7076 917.9058 10100.20703 2059.793226 77.1375 1366.7906 352.2305 TCGA-73-4676 Null 122 Null IIA II-IV Yes 0.315 62.5 85 120 0.15 0.15 0.04720917 Other 0.129723212 Other 0.005528976 Low 0.107974091 Low -0.158400288 Low Low/II-IV 8.4433 2221.1082 1595.7784 4679.827452 532.27967 278.628 1262.2691 469.1293 TCGA-78-7143 4961 Null Null IB I Null 0.77 Null Null 33 0.16 0.05 -0.141230976 Other 0.048367919 Other -0.445698869 Low -0.396821665 Low -0.104318835 Low Low/I 25.9117 1705.8541 1293.1862 10321.10464 1463.737461 264.8752 1411.7083 329.1747 TCGA-78-7146 173 Null Null IIIA II-IV Null 0.384 Null Null 26 0.17 0.05 -0.068513578 Other 0.024755415 Other 0.452119397 High 0.424305325 High 0.250074679 Low Low/II-IV 48.2587 1685.5721 2069.6517 18339.76306 1646.4064 679.602 2210.9453 932.3383 TCGA-78-7156 976 Null Null IV II-IV Null 0.462 Null Null 33 0.15 0.05 -0.059208957 Other 0.009993398 Other -0.126884464 Low -0.079022568 Low -0.051214445 Low Low/II-IV 2.4876 1814.0547 1432.8358 35703.57494 4097.72406 31.0945 1177.8607 557.2139 TCGA-78-7158 179 Null Null IIIB II-IV Yes 0.495 Null Null 36 0.15 0.05 0.041562361 Other 0.040320947 Other -0.446580304 Low -0.437758606 Low -0.569866377 Low Low/II-IV 5.3942 2066.39 3085.0622 24190.97916 1833.242828 146.473 1221.9917 892.9461 TCGA-78-7535 949 Null Null IB I Yes 0.72 Null Null 31 0.14 0.05 -0.135532613 Other 0.105928755 Other -0.231244973 Low -0.19432641 Low 0.050221912 Low Low/I 53.3076 3817.5352 764.0757 5157.454201 1479.354864 129.0044 823.7802 290.3487 TCGA-86-6562 Null 0 Null IIA II-IV Yes 1.064 Null Null 34 0.13 0.13 0.08031345 Other 0.099796926 Other 0.09702671 Low 0.217466254 Low -0.1707296 Low Low/II-IV 14.4714 9829.8271 1442.8514 11599.77629 943.322959 173.1207 1963.2855 498.995 TCGA-91-6828 Null 38 Null IA I Null 0.48 Null Null 38 0.14 0.14 -0.078788989 Other 0.082298818 Other -0.458799714 Low -0.37192567 Low -0.128259888 Low Low/I 12.6263 1318.1818 1594.2761 5089.368945 522.601843 120.3704 2660.7744 569.8653 TCGA-91-6829 1258 Null Null IB I Null 0.18 Null Null 35 0.15 0.15 -0.06189762 HMS/SN1120 0.070326813 HMS/SN1120 -0.243457989 Low -0.221135217 Low -0.354552296 Low Low/I 6.7114 804.8529 2737.7388 6483.895995 487.241016 335.5705 2291.1719 643.779 TCGA-91-6831 Null 39 Null IB I Null 0.144 Null Null 28 0.14 0.14 0.090446916 HMS/SN1120 -0.082827639 HMS/SN1120 0.029157827 Low 0.166991308 Low -0.249327655 Low Low/I 37.8159 2318.3484 1560.4862 5741.808599 808.895031 388.9639 1958.7112 580.3589 TCGA-91-6835 Null 35 Null IA I Null 0.22 Null Null 31 0.14 0.14 -0.104820959 Other -0.08603917 Other -0.373864923 Low -0.408078924 Low -0.021224929 Low Low/I 163.4312 11549.8871 1885.7788 Null Null 117.3815 3593.6795 589.6163 TCGA-91-6836 Null 11 Null IB I Null 0.216 Null Null 40 0.14 0.14 -0.08924845 Other -0.118409587 Other 0.308850652 Low -0.015993829 Low -0.031815676 Low Low/I 9.7045 1211.2925 1192.3247 Null Null 246.5814 8071.019 2353.7715 TCGA-91-6840 Null 0 Null IA I Null 0.14 Null Null 29 0.14 0.05 0.048374171 Other -0.051149324 Other -0.840614346 Low -0.559167606 Low -0.326936557 Low Low/I 35.1475 1653.4609 2506.1699 9218.861147 1444.307753 316.3275 1247.7364 405.7245 TCGA-91-6847 Null 842 Null IB I Null 0.132 Null Null 40 0.15 0.05 0.042700511 Other 0.039477646 Other -0.484240771 Low -0.500547454 Low -0.596949066 Low Low/I 8.5675 325.2228 1532.5565 11138.52568 1932.953867 249.4859 2030.5003 486.9774 TCGA-97-8171 Null 107 Null IV II-IV Null 0.76 Null Null 40 0.15 0.05 0.038605486 Other 0.008696616 Other -0.582848317 Low -0.590135766 Low -0.68356163 Low Low/II-IV 4.2129 11224.828 2634.1806 41527.0436 5249.192947 121.3313 922.9041 577.1661