Molecular subtypes MRNA_CNMF MRNA_CHIERARCHICAL CN_CNMF METHLYATION_CNMF RPPA_CNMF RPPA_CHIERARCHICAL MRNASEQ_CNMF MRNASEQ_CHIERARCHICAL MIRSEQ_CNMF MIRSEQ_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 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 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 1p gain 0 (0%) 414 1 1 1 1 3.6007e-08 2.57e-05 0.00056497 0.351 0.081519 1 0.024133 1 0.024329 1 0.30953 1 0.63509 1 0.76296 1 1q gain 0 (0%) 295 0.46488 1 0.88479 1 0.035246 1 1.8806e-05 0.0127 0.13068 1 0.14618 1 0.00065946 0.407 0.70272 1 0.53406 1 0.59776 1 2p gain 0 (0%) 422 0.03123 1 0.015087 1 6.9979e-08 4.99e-05 3.8879e-06 0.00268 0.078071 1 0.030149 1 0.00025572 0.163 0.0012367 0.746 0.00021023 0.135 0.0051153 1 2q gain 0 (0%) 427 0.0302 1 0.025306 1 1.6942e-06 0.00118 7.9235e-07 0.000555 0.25214 1 0.27599 1 0.00018355 0.119 0.01826 1 0.00016153 0.105 0.0020987 1 3p gain 0 (0%) 459 NA NA NA NA 0.032214 1 0.046198 1 0.13709 1 0.27068 1 0.0070266 1 0.0018011 1 0.87616 1 0.66359 1 3q gain 0 (0%) 443 NA NA NA NA 0.002502 1 0.0023517 1 0.078299 1 0.022215 1 0.0045641 1 0.10727 1 0.042959 1 0.35803 1 4p gain 0 (0%) 442 0.55363 1 0.41815 1 0.0035245 1 0.010189 1 0.072717 1 0.034995 1 0.75953 1 0.31103 1 0.49098 1 0.36811 1 4q gain 0 (0%) 461 NA NA NA NA 0.037947 1 0.83822 1 0.2221 1 0.27068 1 0.77525 1 0.23221 1 0.1036 1 0.12614 1 5p gain 0 (0%) 294 0.48692 1 0.4185 1 9.1029e-15 6.65e-12 0.15626 1 0.23307 1 0.63629 1 0.018798 1 0.031342 1 0.18992 1 0.09707 1 5q gain 0 (0%) 416 0.017738 1 0.64431 1 0.045138 1 0.00074201 0.456 0.54134 1 0.18722 1 0.016558 1 0.041062 1 0.35649 1 0.1043 1 6p gain 0 (0%) 401 0.29183 1 0.05069 1 0.01985 1 3.7746e-06 0.0026 0.0093568 1 0.26104 1 0.00282 1 0.26136 1 0.070268 1 0.34207 1 6q gain 0 (0%) 452 NA NA NA NA 0.40991 1 0.0096519 1 0.10777 1 0.064469 1 0.05183 1 0.46338 1 0.060574 1 0.023244 1 7p gain 0 (0%) 318 0.75419 1 0.5228 1 3.0761e-18 2.25e-15 1.9669e-06 0.00137 8.9258e-05 0.0586 0.0094814 1 3.8872e-06 0.00268 7.4731e-07 0.000524 0.00055258 0.344 0.0052468 1 7q gain 0 (0%) 361 0.38828 1 0.70175 1 5.8646e-09 4.21e-06 0.0004719 0.295 0.078881 1 0.29831 1 1.6806e-05 0.0113 1.2179e-05 0.00827 0.14224 1 0.23816 1 8p gain 0 (0%) 413 NA NA NA NA 3.7361e-10 2.7e-07 0.0032345 1 0.59752 1 0.84164 1 4.3248e-05 0.0288 0.0056838 1 0.42377 1 0.17641 1 8q gain 0 (0%) 328 0.064056 1 0.19076 1 1.9041e-21 1.4e-18 3.3188e-07 0.000235 0.035664 1 0.0042398 1 0.0009253 0.564 0.0011681 0.707 3.0562e-07 0.000216 3.9735e-07 0.000281 9p gain 0 (0%) 458 NA NA NA NA 0.01734 1 0.011241 1 1 1 0.84262 1 0.34728 1 0.23704 1 0.47093 1 0.22682 1 9q gain 0 (0%) 465 NA NA NA NA 0.27415 1 0.5904 1 0.39223 1 0.26858 1 0.47005 1 1 1 0.25536 1 0.23916 1 10p gain 0 (0%) 423 NA NA NA NA 0.041705 1 0.00011027 0.0721 0.16869 1 0.16046 1 0.0038482 1 0.1072 1 0.095504 1 0.27651 1 10q gain 0 (0%) 444 NA NA NA NA 0.10669 1 0.023719 1 0.55524 1 0.18774 1 1.6662e-05 0.0113 0.25291 1 0.6092 1 0.29237 1 11p gain 0 (0%) 437 NA NA NA NA 0.052748 1 0.041882 1 0.1006 1 0.47594 1 0.052974 1 0.27356 1 0.031261 1 0.12947 1 11q gain 0 (0%) 421 0.11976 1 0.15726 1 0.00091473 0.559 0.013133 1 0.00082362 0.505 0.019571 1 0.0049001 1 0.0020662 1 0.0033314 1 0.019345 1 12p gain 0 (0%) 415 0.56496 1 0.13192 1 3.0173e-14 2.2e-11 8.574e-05 0.0564 0.17972 1 0.1154 1 0.00096369 0.586 0.00037483 0.237 0.00025698 0.164 0.0035673 1 12q gain 0 (0%) 426 0.56496 1 0.13192 1 2.8963e-12 2.11e-09 0.00018438 0.119 0.15757 1 0.089273 1 0.0001892 0.122 0.0012316 0.744 0.0074355 1 0.075678 1 13q gain 0 (0%) 457 NA NA NA NA 0.22626 1 0.027219 1 0.43272 1 0.29381 1 0.1062 1 0.16349 1 0.83309 1 0.26942 1 14q gain 0 (0%) 416 NA NA NA NA 4.9039e-06 0.00336 2.9768e-06 0.00206 0.12705 1 0.51774 1 0.00056561 0.351 0.018435 1 0.0071956 1 0.00035498 0.225 15q gain 0 (0%) 458 NA NA NA NA 0.26273 1 0.54151 1 0.81901 1 0.5781 1 0.20013 1 0.21241 1 0.54771 1 0.41528 1 16p gain 0 (0%) 405 0.35825 1 0.32152 1 0.32844 1 0.00034914 0.221 0.087838 1 0.44803 1 0.00017912 0.116 0.015049 1 0.15498 1 0.098429 1 16q gain 0 (0%) 430 0.19234 1 0.051411 1 0.42796 1 0.0097721 1 0.025313 1 0.025242 1 0.010324 1 0.2222 1 0.16319 1 0.060455 1 17p gain 0 (0%) 444 NA NA NA NA 8.7254e-06 0.00595 0.00042658 0.268 0.66456 1 0.53278 1 0.60899 1 0.33428 1 0.063377 1 0.14613 1 17q gain 0 (0%) 394 0.044722 1 0.70175 1 4.6891e-08 3.35e-05 1.3902e-06 0.00097 0.42297 1 0.19877 1 0.0057512 1 0.059537 1 0.021788 1 0.029841 1 18p gain 0 (0%) 430 NA NA NA NA 2.1329e-06 0.00148 0.0011183 0.678 0.071061 1 0.20947 1 0.25595 1 0.053992 1 0.016315 1 0.016446 1 18q gain 0 (0%) 446 NA NA NA NA 2.196e-05 0.0148 0.00060846 0.377 0.089952 1 0.037314 1 0.034272 1 0.001393 0.834 0.10155 1 0.033611 1 19p gain 0 (0%) 466 NA NA NA NA 0.77335 1 0.37216 1 0.7761 1 1 1 0.48209 1 1 1 0.5117 1 0.86194 1 19q gain 0 (0%) 450 NA NA NA NA 0.00046067 0.288 0.17589 1 0.40228 1 0.014388 1 0.0034072 1 0.043147 1 0.096592 1 0.068345 1 20p gain 0 (0%) 411 0.023526 1 0.012653 1 3.0574e-06 0.00211 2.7756e-05 0.0186 0.024914 1 0.68732 1 5.7439e-05 0.0381 0.00013508 0.0881 0.018901 1 0.0077237 1 20q gain 0 (0%) 396 0.0023737 1 0.0021899 1 4.7968e-07 0.000337 5.0053e-09 3.6e-06 0.0013155 0.789 0.091419 1 5.5892e-06 0.00382 6.1501e-05 0.0407 0.0021202 1 0.0022979 1 21q gain 0 (0%) 431 0.19234 1 0.15726 1 4.9992e-05 0.0332 3.4241e-05 0.0229 0.09138 1 0.052338 1 0.23005 1 0.16999 1 0.059583 1 0.3802 1 22q gain 0 (0%) 452 NA NA NA NA 0.060988 1 0.12997 1 0.78173 1 0.17219 1 0.17515 1 0.39831 1 0.092872 1 0.056439 1 Xq gain 0 (0%) 453 0.7496 1 0.59113 1 0.00023724 0.152 0.042457 1 0.43272 1 0.5983 1 0.29945 1 0.37763 1 0.62499 1 0.64074 1 1p loss 0 (0%) 444 NA NA NA NA 0.0044453 1 0.00021355 0.137 0.11126 1 0.19883 1 0.1126 1 0.18866 1 0.78901 1 0.14613 1 1q loss 0 (0%) 461 NA NA NA NA 0.061871 1 0.081099 1 0.2221 1 0.015141 1 0.54429 1 0.34281 1 0.41776 1 0.096849 1 2p loss 0 (0%) 466 NA NA NA NA 0.93066 1 0.46619 1 1 1 0.61732 1 0.54815 1 1 1 0.7577 1 0.86194 1 2q loss 0 (0%) 468 NA NA NA NA 0.1486 1 0.22703 1 NA NA NA NA 0.8702 1 1 1 0.54389 1 0.79746 1 3p loss 0 (0%) 379 0.2081 1 0.17643 1 0.00045648 0.286 1.5326e-05 0.0104 0.15622 1 0.4015 1 0.5391 1 0.035977 1 0.031344 1 0.021083 1 3q loss 0 (0%) 416 0.55363 1 0.41815 1 0.010691 1 0.0033496 1 0.34086 1 0.93304 1 0.13975 1 0.4478 1 0.42921 1 0.024215 1 4p loss 0 (0%) 434 NA NA NA NA 1.2563e-05 0.00852 6.4378e-05 0.0425 0.19181 1 0.24819 1 0.00066842 0.412 4.1306e-05 0.0276 0.00010188 0.0667 0.0080962 1 4q loss 0 (0%) 427 0.0060484 1 0.0070565 1 2.2044e-10 1.6e-07 4.2432e-07 0.000299 0.46872 1 0.5783 1 9.0995e-05 0.0597 9.3857e-08 6.66e-05 0.00038576 0.243 0.00057878 0.359 5p loss 0 (0%) 457 NA NA NA NA 0.006451 1 0.0080031 1 0.30598 1 0.77738 1 0.64004 1 0.034773 1 0.16976 1 0.22682 1 5q loss 0 (0%) 414 0.023526 1 0.012653 1 3.4011e-05 0.0228 1.0066e-05 0.00685 0.038819 1 0.098574 1 0.00012422 0.0811 0.043005 1 0.0094389 1 0.0055304 1 6p loss 0 (0%) 434 0.33468 1 0.30806 1 0.025173 1 0.037418 1 0.20205 1 0.53707 1 0.16187 1 0.97294 1 0.23891 1 0.74495 1 6q loss 0 (0%) 367 0.80335 1 0.72164 1 0.070422 1 4.3992e-06 0.00302 0.1041 1 0.033507 1 0.015677 1 0.15354 1 0.3975 1 0.86816 1 7p loss 0 (0%) 458 0.55363 1 0.41815 1 0.0072296 1 0.31247 1 0.52239 1 0.93754 1 0.024383 1 0.066953 1 0.10006 1 0.80139 1 7q loss 0 (0%) 455 0.52998 1 0.18587 1 0.030531 1 0.41084 1 0.68724 1 0.82053 1 0.3147 1 0.27243 1 1 1 0.73423 1 8p loss 0 (0%) 354 0.10434 1 0.17288 1 4.7485e-14 3.46e-11 1.9961e-06 0.00139 0.1732 1 0.028147 1 0.040251 1 0.0024567 1 0.02715 1 0.0097918 1 8q loss 0 (0%) 455 NA NA NA NA 0.00094334 0.574 0.090013 1 0.001241 0.747 0.0052641 1 0.3281 1 0.0477 1 0.95096 1 0.68982 1 9p loss 0 (0%) 333 0.15472 1 0.20593 1 2.7013e-08 1.93e-05 2.5852e-05 0.0174 0.34531 1 0.049049 1 0.0089313 1 0.027491 1 0.79679 1 0.70065 1 9q loss 0 (0%) 355 0.46164 1 0.47514 1 8.1724e-08 5.81e-05 1.0698e-08 7.67e-06 0.3234 1 0.144 1 0.019314 1 0.013123 1 0.10131 1 0.21023 1 10p loss 0 (0%) 437 0.90089 1 0.8178 1 0.00070668 0.435 0.00088884 0.544 0.052545 1 0.099122 1 0.083242 1 0.51045 1 0.045349 1 0.012846 1 10q loss 0 (0%) 427 0.7496 1 0.59113 1 0.0012414 0.747 0.0045419 1 0.015725 1 0.058513 1 0.025841 1 0.6089 1 0.31149 1 0.026391 1 11p loss 0 (0%) 440 0.33468 1 0.10222 1 0.0005298 0.331 0.84564 1 0.0045403 1 0.026834 1 0.041971 1 0.053973 1 0.15863 1 0.097656 1 11q loss 0 (0%) 443 0.47379 1 0.15726 1 0.0027079 1 0.49977 1 0.010249 1 0.025131 1 0.452 1 0.21063 1 0.38362 1 0.82731 1 12p loss 0 (0%) 435 0.7282 1 0.8178 1 0.22911 1 0.00065309 0.404 0.81934 1 0.53401 1 0.071998 1 0.59252 1 0.26859 1 0.7113 1 12q loss 0 (0%) 449 NA NA NA NA 0.078702 1 0.13092 1 0.88633 1 0.30468 1 0.40413 1 0.92078 1 0.38626 1 0.82205 1 13q loss 0 (0%) 363 0.084587 1 0.041059 1 3.554e-21 2.61e-18 6.4648e-07 0.000454 0.28492 1 0.0093561 1 0.0009661 0.586 0.066814 1 0.0030566 1 0.032817 1 14q loss 0 (0%) 426 0.40121 1 0.41815 1 0.0631 1 0.02449 1 0.030579 1 0.004879 1 0.097075 1 0.66507 1 0.075483 1 0.16714 1 15q loss 0 (0%) 377 0.40454 1 0.21903 1 5.2574e-12 3.82e-09 1.4103e-09 1.02e-06 0.48115 1 0.018752 1 6.09e-05 0.0403 0.00041818 0.263 0.00026922 0.171 0.00023871 0.153 16p loss 0 (0%) 435 NA NA NA NA 0.0003069 0.195 0.001816 1 0.044709 1 0.28061 1 0.13474 1 0.11394 1 0.096874 1 0.08083 1 16q loss 0 (0%) 416 0.015881 1 1 1 4.6443e-06 0.00319 0.0014839 0.887 0.0059521 1 0.0085501 1 0.0080295 1 0.22754 1 0.014852 1 0.21784 1 17p loss 0 (0%) 363 0.12966 1 0.30099 1 5.858e-06 0.004 0.0035343 1 0.057179 1 0.20966 1 0.44973 1 0.44425 1 0.59165 1 0.60028 1 17q loss 0 (0%) 455 NA NA NA NA 0.1551 1 0.02222 1 0.066137 1 0.89735 1 0.47569 1 0.1977 1 0.85377 1 0.027051 1 18p loss 0 (0%) 397 0.41986 1 0.41218 1 1.1432e-05 0.00777 0.019843 1 0.88021 1 0.22337 1 0.033477 1 0.28945 1 0.68816 1 0.858 1 18q loss 0 (0%) 364 0.41986 1 0.41218 1 1.6812e-09 1.21e-06 0.00016049 0.104 0.30099 1 0.12927 1 0.0002544 0.163 0.024221 1 0.1353 1 0.95043 1 19p loss 0 (0%) 360 0.64867 1 0.68791 1 1.5576e-09 1.12e-06 7.1483e-08 5.09e-05 0.86711 1 0.68957 1 7.5294e-05 0.0496 0.1159 1 0.0060342 1 0.014327 1 19q loss 0 (0%) 405 0.71049 1 0.72164 1 0.00019019 0.123 0.028818 1 0.77814 1 0.43291 1 0.0081357 1 0.4376 1 0.018108 1 0.070492 1 20p loss 0 (0%) 411 0.19188 1 0.41218 1 0.00019416 0.125 0.053462 1 0.0063065 1 0.025187 1 0.1137 1 0.18236 1 0.725 1 0.1084 1 20q loss 0 (0%) 448 NA NA NA NA 0.26161 1 0.13942 1 0.32479 1 0.3064 1 0.41852 1 0.33318 1 0.63504 1 0.55499 1 21q loss 0 (0%) 406 NA NA NA NA 3.0301e-12 2.2e-09 9.9995e-08 7.09e-05 0.10286 1 0.017555 1 1.4239e-06 0.000992 4.4379e-07 0.000312 3.1081e-05 0.0208 8.05e-07 0.000563 22q loss 0 (0%) 382 0.30751 1 0.32108 1 5.7463e-10 4.15e-07 4.5583e-05 0.0303 0.0090911 1 0.010973 1 0.020166 1 0.0074711 1 0.00039775 0.251 0.00182 1 Xq loss 0 (0%) 461 NA NA NA NA 0.25276 1 0.28051 1 0.7403 1 0.57183 1 0.055361 1 0.36283 1 0.79361 1 0.34957 1