Molecular subtypes 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 Chi-square test_P Chi-square 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 1p gain 0 (0%) 291 0.0015974 0.995 0.50725 1 0.032655 1 0.20412 1 0.12951 1 0.09281 1 0.27662 1 0.03241 1 0.14889 1 0.27541 1 1q gain 0 (0%) 263 1.7476e-06 0.00128 0.00039531 0.26 0.0022178 1 0.0029693 1 8.3085e-05 0.0567 0.00093448 0.598 0.0011189 0.709 0.02597 1 0.015212 1 0.0086545 1 2p gain 0 (0%) 281 2.1235e-05 0.0151 0.0014846 0.932 0.012008 1 0.87401 1 0.16666 1 0.11643 1 0.00063461 0.411 0.063093 1 0.00027762 0.185 0.012749 1 2q gain 0 (0%) 282 3.73e-05 0.0261 0.010787 1 0.037854 1 0.77107 1 0.037516 1 0.017171 1 0.0064804 1 0.12743 1 0.0067178 1 0.026372 1 3p gain 0 (0%) 292 1 1 0.20217 1 0.14212 1 0.014417 1 0.33621 1 0.36231 1 0.16601 1 0.82264 1 0.10944 1 0.51243 1 3q gain 0 (0%) 274 0.0081496 1 0.2707 1 1 1 0.46004 1 0.02241 1 0.023104 1 0.40023 1 0.13797 1 0.083375 1 0.1173 1 4p gain 0 (0%) 300 0.011738 1 0.28579 1 0.84441 1 1 1 0.11077 1 0.4435 1 1 1 1 1 1 1 0.78907 1 5p gain 0 (0%) 262 3.1921e-06 0.00232 0.0021789 1 0.33841 1 0.15538 1 6.2534e-05 0.043 0.00036723 0.242 0.0013416 0.845 0.012444 1 0.0021273 1 0.0025503 1 5q gain 0 (0%) 295 0.043604 1 0.95016 1 1 1 0.12963 1 0.12468 1 0.54464 1 0.28228 1 0.92129 1 0.68672 1 0.1266 1 6p gain 0 (0%) 279 1.0687e-06 0.000788 6.0244e-05 0.0416 0.92751 1 0.74285 1 0.0028552 1 0.023514 1 0.00041671 0.274 0.019047 1 0.00074772 0.482 0.0035006 1 6q gain 0 (0%) 283 1.0793e-05 0.00775 0.00035257 0.233 0.87997 1 0.86581 1 0.005881 1 0.0025296 1 0.0024414 1 0.10065 1 0.005199 1 0.014803 1 7p gain 0 (0%) 210 3.9134e-15 3.01e-12 3.8508e-05 0.0269 0.38207 1 0.35991 1 0.0089784 1 0.070368 1 0.18757 1 0.065294 1 0.0065987 1 0.0033888 1 7q gain 0 (0%) 228 9.6729e-15 7.41e-12 0.00056189 0.366 0.39795 1 0.77079 1 0.15974 1 0.33733 1 0.25476 1 0.42876 1 0.26077 1 0.05395 1 8p gain 0 (0%) 214 0.039419 1 0.00043994 0.289 0.052687 1 0.048703 1 0.050056 1 0.038598 1 0.0076225 1 0.049571 1 1.9989e-05 0.0142 0.00194 1 8q gain 0 (0%) 183 0.23131 1 2.436e-07 0.000181 0.017477 1 0.05062 1 0.00034258 0.227 0.073272 1 0.00017131 0.115 0.0036053 1 4.4645e-05 0.031 1.885e-05 0.0134 9p gain 0 (0%) 283 0.12195 1 0.13864 1 0.30902 1 0.34612 1 0.43931 1 0.30874 1 0.72898 1 0.034496 1 0.66792 1 0.05659 1 9q gain 0 (0%) 276 0.038422 1 0.11336 1 0.11735 1 0.23995 1 0.58318 1 0.25204 1 0.96974 1 0.44672 1 0.82317 1 0.15237 1 10p gain 0 (0%) 260 5.7546e-11 4.36e-08 0.002043 1 0.82201 1 0.76504 1 0.0529 1 0.013405 1 0.58495 1 0.017252 1 0.53174 1 0.0046651 1 10q gain 0 (0%) 279 6.1481e-07 0.000455 0.04812 1 0.71799 1 0.50114 1 0.47067 1 0.64017 1 0.6614 1 0.78185 1 0.57382 1 0.18255 1 11p gain 0 (0%) 293 0.78427 1 0.11493 1 0.8398 1 0.91133 1 0.53671 1 0.18322 1 0.08632 1 0.049953 1 0.52142 1 0.025798 1 11q gain 0 (0%) 285 0.18565 1 0.033831 1 0.94917 1 0.52318 1 0.38193 1 0.063371 1 0.057129 1 0.030341 1 0.084887 1 0.0081822 1 12p gain 0 (0%) 270 0.0028073 1 0.17817 1 0.12372 1 0.32705 1 0.061551 1 0.15207 1 0.0035235 1 0.45327 1 0.0019173 1 0.022 1 12q gain 0 (0%) 277 0.11032 1 0.16802 1 0.33577 1 0.24317 1 0.81944 1 0.63507 1 0.33412 1 0.26008 1 0.016371 1 0.04528 1 13q gain 0 (0%) 240 1.3012e-07 9.69e-05 0.00032492 0.216 0.26617 1 0.37726 1 0.010823 1 0.38551 1 0.0038464 1 0.033107 1 0.001804 1 0.028064 1 14q gain 0 (0%) 300 0.053606 1 0.28345 1 0.035918 1 0.53229 1 NA NA NA NA 0.27956 1 0.61179 1 0.43048 1 0.33981 1 15q gain 0 (0%) 295 0.0073595 1 0.54299 1 0.036351 1 0.82356 1 0.072315 1 0.0069946 1 0.72385 1 0.15319 1 0.33622 1 0.061332 1 16p gain 0 (0%) 292 0.045273 1 0.11581 1 0.7818 1 0.91588 1 0.040723 1 0.81431 1 0.72597 1 0.096398 1 0.11289 1 0.67423 1 16q gain 0 (0%) 293 0.018697 1 0.82574 1 0.56919 1 0.27762 1 0.1704 1 0.58077 1 0.75673 1 0.12142 1 0.57189 1 1 1 17p gain 0 (0%) 298 0.011019 1 0.4568 1 0.62594 1 0.13498 1 0.53941 1 1 1 0.63586 1 0.88982 1 0.072648 1 0.5599 1 17q gain 0 (0%) 290 0.0090751 1 0.66423 1 0.59831 1 0.33329 1 0.17161 1 0.6742 1 1 1 0.43881 1 0.13463 1 0.25314 1 18p gain 0 (0%) 280 0.00028395 0.189 3.8703e-05 0.027 0.085511 1 0.24113 1 0.13519 1 0.25723 1 0.54768 1 0.11213 1 0.66792 1 0.088983 1 18q gain 0 (0%) 291 0.049607 1 0.061522 1 0.22105 1 0.09426 1 0.31579 1 0.18883 1 0.11183 1 0.11605 1 0.039716 1 0.47791 1 19p gain 0 (0%) 292 0.63579 1 0.021917 1 0.68549 1 0.21706 1 0.85699 1 0.3991 1 0.49342 1 0.9348 1 0.49459 1 0.55201 1 19q gain 0 (0%) 273 0.087528 1 0.38188 1 0.48682 1 0.2684 1 0.24463 1 0.062433 1 0.13919 1 0.21831 1 0.24921 1 0.43129 1 20p gain 0 (0%) 177 7.5929e-18 5.85e-15 5.6606e-09 4.25e-06 0.012643 1 0.11491 1 7.1875e-07 0.000531 2.4056e-06 0.00176 2.1617e-05 0.0153 5.8597e-07 0.000434 0.0011235 0.711 3.9889e-06 0.00289 20q gain 0 (0%) 148 3.084e-26 2.38e-23 7.3442e-14 5.61e-11 0.0034722 1 0.25244 1 1.8282e-10 1.38e-07 7.2319e-10 5.45e-07 3.0267e-07 0.000225 5.7913e-12 4.4e-09 0.0028197 1 1.5055e-10 1.14e-07 21q gain 0 (0%) 302 0.10533 1 0.86031 1 0.52876 1 0.41083 1 NA NA NA NA 0.11183 1 0.34295 1 0.31087 1 0.1946 1 22q gain 0 (0%) 299 0.020826 1 0.18133 1 0.86582 1 0.13498 1 0.74079 1 0.34975 1 0.25317 1 0.24379 1 0.18487 1 0.30835 1 Xq gain 0 (0%) 300 0.36146 1 0.22265 1 0.55225 1 1 1 0.13517 1 0.26491 1 0.13406 1 0.0096918 1 0.81603 1 0.019273 1 1p loss 0 (0%) 291 8.3208e-06 0.00598 0.094458 1 0.15137 1 0.49956 1 0.40831 1 0.15768 1 0.83505 1 0.65233 1 0.22523 1 0.794 1 1q loss 0 (0%) 302 0.73986 1 0.86031 1 NA NA NA NA 0.72446 1 0.19571 1 0.51571 1 0.25984 1 0.19439 1 0.43569 1 2p loss 0 (0%) 299 0.0048619 1 0.40025 1 0.067032 1 0.42215 1 0.10775 1 0.027312 1 0.385 1 0.047099 1 0.50806 1 0.71207 1 2q loss 0 (0%) 300 0.011738 1 0.68008 1 0.74521 1 0.72791 1 0.27896 1 0.073715 1 0.63115 1 0.079147 1 0.81603 1 0.33981 1 3p loss 0 (0%) 281 1.3131e-06 0.000966 0.0015207 0.95 0.18159 1 0.50789 1 0.00056779 0.369 0.02345 1 0.0015524 0.969 0.11241 1 0.034643 1 0.021131 1 3q loss 0 (0%) 291 7.6105e-05 0.0521 0.019716 1 0.61278 1 0.92652 1 0.00045924 0.3 0.096477 1 0.00074728 0.482 0.2838 1 0.0097805 1 0.26474 1 4p loss 0 (0%) 250 2.3073e-11 1.75e-08 0.0003895 0.257 0.2494 1 0.19907 1 8.5148e-05 0.0579 6.5633e-05 0.045 0.0046212 1 9.1599e-05 0.0622 0.0059698 1 0.0009219 0.591 4q loss 0 (0%) 254 2.2751e-14 1.74e-11 4.2631e-05 0.0297 0.036482 1 0.19723 1 0.00024177 0.162 0.00022643 0.152 0.0014225 0.895 6.4017e-05 0.044 0.0049632 1 0.0029015 1 5p loss 0 (0%) 288 1.7413e-06 0.00128 0.0039198 1 0.53409 1 0.41377 1 0.0037514 1 0.00032892 0.218 0.16367 1 0.042111 1 0.12995 1 0.0153 1 5q loss 0 (0%) 270 2.2051e-13 1.68e-10 2.4707e-06 0.0018 0.67114 1 0.81767 1 4.1232e-06 0.00299 5.9432e-06 0.00429 0.0060661 1 0.00027343 0.183 0.011685 1 8.439e-05 0.0575 6p loss 0 (0%) 291 0.0083741 1 0.29028 1 0.26889 1 0.12558 1 0.16513 1 0.45381 1 0.83505 1 0.3445 1 0.49352 1 0.52676 1 6q loss 0 (0%) 287 0.0028323 1 0.1069 1 0.1077 1 0.065266 1 0.029919 1 0.20273 1 0.51133 1 0.711 1 1 1 0.88495 1 7p loss 0 (0%) 301 0.02732 1 NA NA 0.21729 1 0.10589 1 0.10912 1 0.4435 1 0.55689 1 0.28708 1 NA NA NA NA 7q loss 0 (0%) 292 2.1246e-05 0.0151 0.04136 1 0.30719 1 0.47885 1 0.015593 1 0.26479 1 0.017679 1 0.1027 1 0.017779 1 0.21047 1 8p loss 0 (0%) 275 2.6789e-06 0.00195 0.032054 1 0.75781 1 0.064448 1 0.012231 1 0.02091 1 0.00032284 0.215 0.021538 1 9.7262e-05 0.0658 0.3289 1 8q loss 0 (0%) 297 0.0051281 1 0.26782 1 1 1 0.49655 1 0.61039 1 0.89005 1 0.14424 1 0.05826 1 0.18487 1 0.75034 1 9p loss 0 (0%) 254 1.6405e-13 1.25e-10 2.6425e-05 0.0186 0.014981 1 0.52868 1 0.00017139 0.115 0.0014962 0.938 0.05007 1 0.020474 1 0.51519 1 0.037263 1 9q loss 0 (0%) 280 8.9015e-08 6.64e-05 0.0041454 1 0.26465 1 0.063422 1 0.069529 1 0.042006 1 0.24655 1 0.62106 1 0.71209 1 0.12249 1 10p loss 0 (0%) 289 0.00050627 0.33 0.0080781 1 0.12267 1 0.25414 1 0.031686 1 0.023664 1 0.020019 1 0.016911 1 0.18322 1 0.011007 1 10q loss 0 (0%) 289 1.6315e-05 0.0116 0.0030674 1 0.54733 1 0.55341 1 0.01199 1 0.053614 1 0.0037362 1 0.063922 1 0.25982 1 0.012895 1 11p loss 0 (0%) 286 3.1268e-05 0.0219 5.3926e-05 0.0374 0.0067122 1 0.44256 1 0.20759 1 0.022607 1 0.16123 1 0.14885 1 0.0071403 1 0.31755 1 11q loss 0 (0%) 289 3.3583e-05 0.0235 0.0089166 1 0.39924 1 0.81087 1 0.42232 1 0.22498 1 0.35762 1 0.57941 1 0.012674 1 0.52676 1 12p loss 0 (0%) 284 2.2973e-05 0.0162 0.00044736 0.293 0.032385 1 0.24188 1 0.00016269 0.109 0.00012688 0.0858 0.023311 1 0.016081 1 0.14111 1 0.0020456 1 12q loss 0 (0%) 293 0.0014953 0.938 0.0067934 1 0.073421 1 0.83947 1 0.043239 1 0.22498 1 1 1 0.15416 1 0.9104 1 0.014658 1 13q loss 0 (0%) 294 0.00047838 0.312 0.10603 1 0.61851 1 0.63783 1 0.51868 1 0.22498 1 0.21314 1 0.79372 1 0.45971 1 0.89709 1 14q loss 0 (0%) 277 7.8457e-08 5.86e-05 0.00090484 0.581 0.52568 1 0.67199 1 0.0012451 0.786 0.003645 1 0.034152 1 0.048286 1 0.56674 1 0.020862 1 15q loss 0 (0%) 280 3.0756e-08 2.3e-05 2.3446e-05 0.0165 0.010242 1 0.031711 1 0.0064126 1 0.0011717 0.741 0.0018286 1 0.00071161 0.46 0.049582 1 0.003597 1 16p loss 0 (0%) 276 5.3723e-13 4.08e-10 1.8928e-05 0.0135 0.33577 1 0.18082 1 2.3909e-06 0.00175 5.4255e-06 0.00392 1.3122e-05 0.00937 0.0094907 1 5.4257e-05 0.0376 0.014828 1 16q loss 0 (0%) 273 4.2924e-10 3.24e-07 3.5133e-06 0.00255 0.11856 1 0.0064673 1 5.9202e-05 0.0409 6.1479e-05 0.0424 0.00097821 0.624 0.086345 1 0.003517 1 0.17668 1 17p loss 0 (0%) 241 6.4306e-15 4.93e-12 8.7194e-07 0.000643 0.67129 1 0.89669 1 0.0001413 0.0954 0.0010319 0.656 0.0087206 1 0.00064514 0.417 0.0017383 1 0.0029874 1 17q loss 0 (0%) 286 8.0441e-05 0.0549 0.02449 1 0.77173 1 0.53009 1 0.017459 1 0.012162 1 0.045506 1 0.0045077 1 0.11106 1 0.15622 1 18p loss 0 (0%) 265 0.00083712 0.538 0.01295 1 0.24361 1 0.84986 1 0.025998 1 0.0049877 1 0.052774 1 0.11316 1 0.0027673 1 0.14439 1 18q loss 0 (0%) 253 2.5384e-05 0.0178 0.020551 1 0.036482 1 0.093911 1 0.0025537 1 9.5526e-05 0.0648 0.024357 1 0.025698 1 0.030621 1 0.042172 1 19p loss 0 (0%) 272 2.5112e-13 1.91e-10 4.4043e-06 0.00318 0.026206 1 0.30538 1 3.1461e-09 2.37e-06 1.2426e-05 0.00891 0.020219 1 1.6164e-06 0.00119 0.011583 1 7.3299e-05 0.0502 19q loss 0 (0%) 282 1.3287e-08 9.97e-06 1.2575e-05 0.00899 0.055503 1 0.43611 1 4.2154e-07 0.000313 0.0046712 1 0.064919 1 1.2455e-05 0.00892 0.092277 1 0.00057398 0.373 20p loss 0 (0%) 296 0.00014474 0.0976 0.017003 1 0.68987 1 0.07403 1 0.00099254 0.632 0.17338 1 0.43789 1 0.51239 1 0.17035 1 0.41498 1 21q loss 0 (0%) 244 1.9638e-08 1.47e-05 6.8338e-06 0.00492 0.31111 1 0.74005 1 0.10937 1 0.00096646 0.618 0.031856 1 0.68135 1 0.12648 1 0.40356 1 22q loss 0 (0%) 265 6.6292e-16 5.1e-13 1.899e-06 0.00139 2.3438e-05 0.0165 0.15971 1 5.8716e-05 0.0406 0.0062535 1 0.0016322 1 0.0010507 0.667 0.010952 1 0.0053212 1 Xq loss 0 (0%) 290 0.0039132 1 0.070066 1 0.61551 1 0.3893 1 0.27384 1 0.11612 1 0.0073132 1 0.26858 1 0.006718 1 0.33074 1