Molecular subtypes MRNA_CNMF MRNA_CHIERARCHICAL CN_CNMF METHLYATION_CNMF RPPA_CNMF RPPA_CHIERARCHICAL MRNASEQ_CNMF MRNASEQ_CHIERARCHICAL MIRSEQ_CNMF MIRSEQ_CHIERARCHICAL MIRSEQ_MATURE_CNMF MIRSEQ_MATURE_CHIERARCHICAL nCNV (%) nWild-Type Fisher's exact test_P Fisher's exact test_Q Fisher's exact test_P Fisher's exact test_Q Fisher's exact test_P Fisher's exact test_Q Fisher's exact test_P Fisher's exact test_Q Fisher's exact test_P Fisher's exact test_Q Fisher's exact test_P Fisher's exact test_Q Fisher's exact test_P Fisher's exact test_Q Fisher's exact test_P Fisher's exact test_Q Fisher's exact test_P Fisher's exact test_Q Fisher's exact test_P Fisher's exact test_Q Fisher's exact test_P Fisher's exact test_Q Chi-square test_P Chi-square test_Q 1p gain 0 (0%) 560 0.4079 1 0.37497 1 0.93194 1 0.56682 1 0.49717 1 0.12806 1 0.17804 1 0.33015 1 0.11131 1 0.91089 1 0.48452 1 0.0368 1 1q gain 0 (0%) 495 0.49725 1 0.96016 1 0.015823 1 0.82512 1 0.25495 1 0.15003 1 0.12824 1 0.075768 1 0.072884 1 0.97845 1 0.15877 1 0.0036042 1 2p gain 0 (0%) 515 0.060801 1 0.00032169 0.258 0.0081555 1 0.00050816 0.405 0.073493 1 0.35745 1 0.00022405 0.181 0.00013733 0.112 0.2161 1 0.020869 1 0.44539 1 0.0028167 1 2q gain 0 (0%) 516 0.017776 1 8.5204e-05 0.07 0.0010069 0.792 1.7053e-05 0.0142 0.20909 1 0.80609 1 0.00023412 0.189 0.00082411 0.65 0.25079 1 0.050357 1 0.91948 1 0.011592 1 3p gain 0 (0%) 539 0.13264 1 0.59276 1 0.00018128 0.147 0.1485 1 0.37425 1 0.76991 1 0.2599 1 0.88499 1 0.20792 1 0.36632 1 0.57147 1 0.060885 1 3q gain 0 (0%) 522 0.23493 1 0.089138 1 2.4908e-06 0.00209 0.015871 1 0.21465 1 0.65544 1 0.074996 1 0.58768 1 0.11128 1 0.54357 1 0.31191 1 0.13261 1 4p gain 0 (0%) 569 NA NA NA NA 0.062196 1 0.22569 1 0.18379 1 0.33915 1 NA NA NA NA 0.13662 1 0.052496 1 0.38522 1 0.2258 1 4q gain 0 (0%) 568 0.70693 1 0.71936 1 0.24967 1 0.78662 1 0.73233 1 0.64544 1 NA NA NA NA 0.38271 1 0.80878 1 NA NA NA NA 5p gain 0 (0%) 515 0.13784 1 0.66124 1 0.0015014 1 0.17379 1 0.79521 1 0.86337 1 0.40113 1 0.39993 1 0.7844 1 0.35435 1 0.85298 1 0.86274 1 5q gain 0 (0%) 542 0.52676 1 0.82563 1 0.0035603 1 0.095603 1 0.74224 1 0.557 1 0.72984 1 0.44647 1 0.81846 1 0.48285 1 0.48802 1 0.84876 1 6p gain 0 (0%) 498 0.18547 1 0.0029461 1 1.5453e-06 0.0013 0.27845 1 0.70357 1 0.12022 1 0.02271 1 0.22684 1 0.84813 1 0.39161 1 0.95161 1 0.21603 1 6q gain 0 (0%) 504 0.30905 1 0.04006 1 7.4722e-07 0.000633 0.11245 1 0.31702 1 0.041776 1 0.06068 1 0.57524 1 0.74931 1 0.25108 1 0.37195 1 0.060776 1 7p gain 0 (0%) 285 0.0015198 1 0.0019295 1 1.8943e-21 1.7e-18 8.5512e-08 7.35e-05 0.2196 1 0.031272 1 3.7185e-08 3.21e-05 9.5428e-05 0.0783 0.070344 1 0.030432 1 0.0086457 1 4.4071e-08 3.8e-05 7q gain 0 (0%) 320 0.001902 1 0.0088861 1 6.9527e-16 6.15e-13 5.9808e-06 0.005 0.77701 1 0.1801 1 8.7918e-07 0.000744 1.2379e-05 0.0103 0.24522 1 0.15535 1 0.046527 1 4.7276e-05 0.0391 8p gain 0 (0%) 467 0.96287 1 0.71705 1 1.0033e-08 8.68e-06 0.45355 1 0.28022 1 0.21454 1 0.18083 1 0.44035 1 0.49022 1 0.89065 1 0.1875 1 0.89754 1 8q gain 0 (0%) 340 0.14548 1 0.017245 1 1.0571e-33 9.52e-31 0.01351 1 0.15018 1 0.32957 1 0.0010965 0.862 0.026497 1 0.45899 1 0.63306 1 0.034458 1 0.14728 1 9p gain 0 (0%) 496 0.50322 1 1 1 0.17843 1 0.79069 1 0.91035 1 0.20389 1 0.53853 1 0.85475 1 0.78008 1 0.78126 1 0.81279 1 0.37918 1 9q gain 0 (0%) 511 0.38501 1 0.85376 1 0.214 1 0.58192 1 0.61199 1 0.033571 1 0.98879 1 0.69074 1 0.4082 1 0.73861 1 1 1 0.52457 1 10p gain 0 (0%) 547 0.19642 1 0.6282 1 0.009811 1 0.013528 1 0.67255 1 0.85739 1 0.61731 1 0.044579 1 0.6164 1 0.49637 1 0.0069747 1 0.45956 1 10q gain 0 (0%) 562 0.88738 1 0.2775 1 0.19283 1 0.05742 1 0.59674 1 0.2885 1 0.44811 1 0.076189 1 0.69363 1 0.90189 1 0.17412 1 0.69301 1 11p gain 0 (0%) 536 0.061484 1 0.2751 1 1.7136e-05 0.0142 0.00020421 0.165 0.8261 1 0.76414 1 0.049079 1 0.00015336 0.125 0.24559 1 0.88201 1 0.1422 1 0.0071319 1 11q gain 0 (0%) 536 0.095636 1 0.029856 1 1.3278e-06 0.00112 0.00072544 0.575 0.4972 1 0.65066 1 0.035611 1 0.0052563 1 0.55893 1 0.40622 1 0.0037827 1 0.058245 1 12p gain 0 (0%) 482 0.38323 1 0.63092 1 0.25584 1 0.020495 1 0.62854 1 0.20534 1 0.023201 1 0.013443 1 0.21996 1 0.11247 1 0.0013235 1 0.01144 1 12q gain 0 (0%) 497 0.32848 1 0.76337 1 0.098608 1 0.0023722 1 0.91035 1 0.33852 1 0.035315 1 0.01536 1 0.22169 1 0.16642 1 0.0013589 1 0.0067303 1 13q gain 0 (0%) 261 4.3773e-07 0.000373 0.00010867 0.089 1.6222e-37 1.46e-34 2.8624e-08 2.47e-05 0.012869 1 0.068273 1 8.5412e-09 7.4e-06 6.3955e-07 0.000542 0.010037 1 0.44955 1 2.855e-07 0.000244 1.211e-10 1.05e-07 14q gain 0 (0%) 556 0.51891 1 0.25062 1 0.030087 1 0.70869 1 0.72426 1 0.39691 1 0.060477 1 0.047976 1 1 1 0.37109 1 0.11031 1 0.076 1 15q gain 0 (0%) 568 NA NA NA NA 0.51457 1 0.88205 1 0.13298 1 0.13101 1 1 1 0.24372 1 0.86981 1 0.37371 1 0.10456 1 0.86592 1 16p gain 0 (0%) 479 0.088167 1 0.16461 1 1.2625e-16 1.12e-13 0.0011867 0.932 0.94091 1 0.029508 1 0.022796 1 0.13645 1 0.57733 1 0.34666 1 0.6308 1 0.0067844 1 16q gain 0 (0%) 479 0.09877 1 0.17393 1 3.0211e-18 2.69e-15 0.00041269 0.33 0.99134 1 0.018203 1 0.019816 1 0.060159 1 0.46459 1 0.27723 1 0.21359 1 0.0016631 1 17p gain 0 (0%) 562 0.77999 1 0.0070285 1 1 1 0.9225 1 0.55159 1 0.72078 1 0.015683 1 0.0089989 1 0.69363 1 0.90189 1 0.36112 1 0.64538 1 17q gain 0 (0%) 508 0.050357 1 0.034999 1 0.00026856 0.216 0.0027104 1 0.64927 1 0.074817 1 1.4683e-05 0.0122 0.0019486 1 0.078543 1 0.35388 1 0.47398 1 0.25682 1 18p gain 0 (0%) 554 0.20744 1 0.059231 1 0.00061013 0.484 0.01034 1 0.51436 1 0.89691 1 0.13285 1 0.39087 1 0.56836 1 0.39747 1 0.55046 1 0.34569 1 18q gain 0 (0%) 563 NA NA NA NA 0.17246 1 0.0073909 1 0.6479 1 0.4677 1 0.12238 1 0.85815 1 0.10546 1 0.13438 1 0.61067 1 0.34931 1 19p gain 0 (0%) 523 0.1938 1 0.14574 1 5.843e-05 0.0482 0.018809 1 0.59774 1 0.028523 1 0.42326 1 0.47411 1 0.71797 1 0.74542 1 0.96463 1 0.074721 1 19q gain 0 (0%) 514 0.01571 1 0.041236 1 0.012239 1 0.077723 1 0.23252 1 0.038311 1 0.50709 1 0.51206 1 0.83213 1 0.49525 1 0.41961 1 0.16303 1 20p gain 0 (0%) 287 0.00014513 0.118 1.6458e-07 0.000141 4.248e-22 3.81e-19 0.00010565 0.0866 0.0072474 1 0.022228 1 3.1963e-07 0.000273 3.2029e-07 0.000273 0.62537 1 0.47156 1 0.00074249 0.587 6.8141e-08 5.87e-05 20q gain 0 (0%) 172 4.3778e-17 3.89e-14 4.3814e-16 3.88e-13 2.2246e-46 2.01e-43 1.6821e-12 1.48e-09 0.00031096 0.25 0.00013315 0.109 9.0343e-18 8.04e-15 1.1305e-13 9.97e-11 0.46311 1 0.10066 1 2.6529e-09 2.3e-06 1.3945e-21 1.25e-18 21q gain 0 (0%) 556 0.45625 1 0.71465 1 0.0026802 1 0.70869 1 0.47988 1 0.089505 1 0.61942 1 0.83363 1 0.68566 1 0.14321 1 0.92611 1 0.61735 1 22q gain 0 (0%) 568 0.69094 1 0.0070285 1 0.23406 1 0.57323 1 0.68516 1 0.4704 1 0.68907 1 0.49881 1 0.45861 1 0.59561 1 NA NA NA NA Xq gain 0 (0%) 558 0.17835 1 0.4456 1 0.016685 1 0.33957 1 0.24406 1 0.31333 1 0.84629 1 1 1 0.48172 1 0.70461 1 0.52102 1 0.88108 1 1p loss 0 (0%) 507 0.24462 1 0.0044288 1 7.5476e-06 0.0063 0.00018947 0.153 0.98399 1 0.82093 1 0.076382 1 0.0082272 1 0.19261 1 0.62049 1 0.97299 1 0.036654 1 1q loss 0 (0%) 550 0.55906 1 0.0258 1 0.082264 1 0.1552 1 0.82472 1 0.94863 1 0.1581 1 0.32381 1 0.42483 1 0.72532 1 1 1 0.2022 1 2p loss 0 (0%) 565 1 1 0.73888 1 0.073513 1 NA NA 0.016828 1 0.65784 1 NA NA NA NA 0.015125 1 0.013286 1 NA NA NA NA 2q loss 0 (0%) 567 0.73955 1 0.61416 1 0.54823 1 NA NA 0.15705 1 0.29927 1 NA NA NA NA 0.058427 1 0.045527 1 NA NA NA NA 3p loss 0 (0%) 540 1 1 0.29167 1 0.83112 1 0.83444 1 0.70251 1 0.53595 1 0.44134 1 0.15697 1 0.10485 1 0.72944 1 0.58823 1 0.30175 1 3q loss 0 (0%) 558 0.44953 1 0.01378 1 0.75688 1 0.019803 1 0.090255 1 0.39819 1 0.3845 1 0.18399 1 0.73957 1 0.7721 1 0.90295 1 0.41055 1 4p loss 0 (0%) 453 0.22709 1 0.2084 1 5.4975e-11 4.79e-08 0.0027558 1 0.69281 1 0.88949 1 0.0061971 1 0.057158 1 0.045027 1 0.76936 1 0.080228 1 0.027335 1 4q loss 0 (0%) 462 0.21346 1 0.13368 1 3.1754e-12 2.79e-09 0.0088832 1 0.60616 1 0.81014 1 0.0021315 1 0.053451 1 0.012191 1 0.56362 1 0.034572 1 0.047982 1 5p loss 0 (0%) 541 0.26897 1 0.44993 1 0.00054432 0.433 0.09278 1 0.55563 1 0.44868 1 0.23394 1 0.035241 1 0.96862 1 0.82879 1 0.72655 1 0.088353 1 5q loss 0 (0%) 515 0.014448 1 0.01062 1 5.5316e-07 0.00047 0.1697 1 0.18571 1 0.81164 1 0.021113 1 0.09854 1 0.96346 1 0.57856 1 0.5183 1 0.039907 1 6p loss 0 (0%) 557 0.13176 1 0.18635 1 0.026043 1 0.27803 1 0.6111 1 0.64127 1 0.88965 1 0.60116 1 0.60161 1 0.92285 1 1 1 0.64645 1 6q loss 0 (0%) 542 0.78382 1 0.62104 1 0.09827 1 0.93869 1 0.13243 1 0.14518 1 0.73685 1 0.67654 1 0.26225 1 0.29769 1 0.6785 1 0.79925 1 7q loss 0 (0%) 572 NA NA NA NA 0.21176 1 NA NA 0.8342 1 1 1 NA NA NA NA 0.76387 1 1 1 NA NA NA NA 8p loss 0 (0%) 430 0.0040565 1 0.0018576 1 1.1426e-18 1.02e-15 0.00010881 0.089 0.28049 1 0.039313 1 0.11036 1 0.15185 1 0.51503 1 0.73021 1 0.0023182 1 0.0076679 1 8q loss 0 (0%) 563 0.66875 1 0.66654 1 0.082808 1 0.58 1 0.02371 1 0.53258 1 1 1 0.8276 1 0.15853 1 0.27077 1 1 1 0.69156 1 9p loss 0 (0%) 536 0.9107 1 0.28571 1 2.8967e-05 0.024 0.0049885 1 0.24717 1 0.14697 1 0.10225 1 0.022105 1 0.12745 1 1 1 0.28396 1 0.051546 1 9q loss 0 (0%) 538 0.24114 1 0.0096951 1 1.9547e-06 0.00164 0.00046787 0.373 0.69204 1 0.20908 1 0.021351 1 0.016716 1 0.049149 1 0.81952 1 0.12211 1 0.022846 1 10p loss 0 (0%) 535 0.71966 1 0.48999 1 0.00086224 0.679 0.43399 1 0.05304 1 0.68205 1 0.40869 1 0.53216 1 0.13213 1 0.59051 1 1 1 0.97304 1 10q loss 0 (0%) 529 0.33458 1 0.41893 1 1.4367e-06 0.00121 0.14795 1 0.020449 1 0.7719 1 0.10225 1 0.2311 1 0.71404 1 0.81051 1 0.39843 1 0.91576 1 11p loss 0 (0%) 535 0.72982 1 0.33609 1 0.0097676 1 0.70517 1 0.32176 1 0.20106 1 0.071558 1 0.083775 1 0.11333 1 0.35936 1 0.080344 1 0.062947 1 11q loss 0 (0%) 524 0.82653 1 0.46367 1 0.0016581 1 0.32175 1 0.73107 1 0.29206 1 0.099677 1 0.50904 1 0.12883 1 0.83548 1 0.074249 1 0.0058251 1 12p loss 0 (0%) 542 0.093826 1 0.22765 1 5.424e-07 0.000461 0.27062 1 0.69409 1 0.37272 1 0.20105 1 0.46045 1 0.54148 1 0.22186 1 0.076449 1 0.63306 1 12q loss 0 (0%) 547 0.35195 1 0.083441 1 1.1071e-06 0.000936 0.52115 1 0.8849 1 0.61896 1 0.14256 1 0.18877 1 0.6164 1 0.6809 1 0.13179 1 0.73635 1 13q loss 0 (0%) 563 0.29716 1 0.28202 1 0.049459 1 0.1813 1 0.071568 1 0.10777 1 0.23575 1 0.66836 1 0.7263 1 0.40273 1 0.43782 1 0.44469 1 14q loss 0 (0%) 432 6.5175e-05 0.0537 2.8353e-07 0.000243 1.1184e-31 1.01e-28 1.633e-07 0.00014 0.00036383 0.291 0.011993 1 1.7256e-07 0.000148 0.00070476 0.559 0.11445 1 0.70906 1 1.5063e-06 0.00127 0.00014546 0.118 15q loss 0 (0%) 419 0.0050013 1 0.003108 1 2.0874e-24 1.88e-21 0.013087 1 0.3029 1 0.83197 1 1.1894e-05 0.00992 0.00057188 0.455 0.3675 1 0.24605 1 0.008727 1 0.00015827 0.129 16p loss 0 (0%) 560 0.26576 1 0.18385 1 0.09948 1 0.1813 1 0.56058 1 0.64644 1 0.58888 1 0.60116 1 1 1 0.91089 1 0.60237 1 0.60535 1 16q loss 0 (0%) 558 0.028437 1 0.24292 1 0.0022089 1 0.49305 1 0.45925 1 0.74782 1 0.091107 1 0.12148 1 0.13425 1 0.25684 1 0.38576 1 0.33986 1 17p loss 0 (0%) 323 0.00027732 0.223 0.0017644 1 5.4882e-22 4.92e-19 1.432e-06 0.00121 0.3171 1 0.48564 1 3.2518e-06 0.00272 0.00079532 0.628 0.027 1 0.49718 1 6.5374e-05 0.0538 0.00031275 0.251 17q loss 0 (0%) 530 0.84393 1 0.48675 1 0.0023038 1 0.92563 1 0.57629 1 0.58734 1 0.10108 1 0.10474 1 0.11572 1 0.63456 1 0.19847 1 0.30434 1 18p loss 0 (0%) 251 1.2405e-13 1.09e-10 3.4045e-12 2.99e-09 4.2634e-47 3.85e-44 1.3507e-18 1.2e-15 0.012006 1 0.015022 1 5.387e-16 4.77e-13 2.735e-11 2.39e-08 0.065035 1 0.7872 1 1.0751e-10 9.36e-08 7.8323e-12 6.85e-09 18q loss 0 (0%) 223 1.3553e-12 1.19e-09 4.3076e-12 3.77e-09 6.8004e-51 6.15e-48 1.9883e-19 1.78e-16 0.024108 1 0.094846 1 3.958e-16 3.51e-13 3.6833e-09 3.19e-06 0.0093757 1 0.37782 1 1.0659e-09 9.26e-07 5.1599e-12 4.51e-09 19p loss 0 (0%) 555 0.73955 1 0.4311 1 1.4622e-05 0.0122 0.047613 1 0.57892 1 0.70494 1 0.0015479 1 0.0028882 1 0.23499 1 0.37109 1 0.051435 1 0.55767 1 19q loss 0 (0%) 557 0.73955 1 0.4311 1 0.00023546 0.19 0.12783 1 0.62489 1 0.91243 1 0.0015479 1 0.0028882 1 0.42424 1 0.097617 1 0.054211 1 0.4083 1 20p loss 0 (0%) 528 0.041217 1 0.18413 1 4.5625e-07 0.000388 0.1166 1 0.7701 1 0.36523 1 0.57735 1 0.39072 1 0.55412 1 0.48621 1 0.80462 1 0.68574 1 21q loss 0 (0%) 461 0.3047 1 0.4869 1 3.6397e-05 0.0301 0.078168 1 0.3278 1 0.3099 1 0.23518 1 0.3916 1 0.11838 1 0.3424 1 0.38349 1 0.16561 1 22q loss 0 (0%) 453 0.014768 1 0.0060575 1 7.7977e-14 6.89e-11 0.27793 1 0.41859 1 0.26407 1 0.067555 1 0.064607 1 0.066218 1 0.10019 1 0.0022603 1 0.095419 1 Xq loss 0 (0%) 564 0.76483 1 1 1 0.33904 1 0.50745 1 0.10782 1 0.49495 1 0.01571 1 0.067381 1 0.51495 1 0.65187 1 0.24724 1 0.176 1