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 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%) 488 NA NA NA NA 0.62741 1 NA NA 0.43887 1 0.035855 1 0.84555 1 0.85029 1 0.4573 1 1 1 1q gain 0 (0%) 461 0.61119 1 1 1 1.0459e-05 0.00625 0.45189 1 0.43377 1 0.19022 1 0.0097169 1 0.15038 1 0.013372 1 0.18921 1 2p gain 0 (0%) 445 0.56067 1 0.47247 1 1.0848e-06 0.000674 0.65317 1 0.046154 1 0.78296 1 0.14408 1 0.078453 1 0.2281 1 0.16042 1 2q gain 0 (0%) 444 0.56067 1 0.47247 1 4.9027e-05 0.0282 0.82441 1 0.052756 1 0.86158 1 0.051935 1 0.049818 1 0.14587 1 0.16042 1 3p gain 0 (0%) 486 NA NA NA NA 0.38574 1 1 1 0.10217 1 0.0032938 1 0.29418 1 0.16078 1 0.011355 1 0.052832 1 3q gain 0 (0%) 466 0.082325 1 0.085132 1 6.5793e-05 0.0376 0.080411 1 0.007183 1 0.00010715 0.0609 0.00039457 0.214 0.0093127 1 0.0003395 0.186 0.0076133 1 4p gain 0 (0%) 485 NA NA NA NA 0.2057 1 0.60825 1 0.42832 1 0.080261 1 0.025659 1 0.37796 1 0.00050042 0.268 0.040706 1 4q gain 0 (0%) 485 NA NA NA NA 0.67035 1 0.79533 1 0.87831 1 0.33815 1 0.011216 1 0.5092 1 0.0039355 1 0.14678 1 5p gain 0 (0%) 352 0.59284 1 0.59153 1 1.2527e-05 0.00745 0.44108 1 0.081729 1 0.054605 1 0.045779 1 0.0084423 1 0.036235 1 0.0059502 1 5q gain 0 (0%) 337 0.10537 1 0.12107 1 5.8712e-05 0.0337 0.37509 1 0.1584 1 0.17451 1 0.038112 1 0.0051214 1 0.11594 1 0.0014103 0.714 6p gain 0 (0%) 487 NA NA NA NA 0.77018 1 0.55518 1 0.8188 1 0.87678 1 0.21454 1 0.44902 1 0.34197 1 0.38929 1 6q gain 0 (0%) 488 NA NA NA NA 0.53168 1 0.79533 1 0.57144 1 0.62591 1 0.44232 1 0.57135 1 0.73725 1 0.43074 1 7p gain 0 (0%) 366 0.87675 1 0.93891 1 5.0545e-06 0.00307 0.054291 1 0.00026802 0.148 0.0056517 1 0.067954 1 0.082377 1 0.025081 1 0.70261 1 7q gain 0 (0%) 364 0.87675 1 0.93891 1 1.3614e-05 0.00809 0.041704 1 0.00011777 0.0665 0.00071795 0.378 0.058061 1 0.13146 1 0.012911 1 0.48104 1 8p gain 0 (0%) 479 NA NA NA NA 5.418e-05 0.0312 0.079578 1 0.086779 1 0.14595 1 0.00097842 0.507 0.00068297 0.361 0.0030191 1 0.11654 1 8q gain 0 (0%) 459 0.053628 1 0.058091 1 2.747e-07 0.000173 0.0010457 0.535 0.010176 1 0.044916 1 1.1473e-07 7.27e-05 4.879e-05 0.0282 6.766e-06 0.00409 0.018229 1 9p gain 0 (0%) 485 NA NA NA NA 0.74129 1 0.24924 1 0.17017 1 0.17028 1 0.10317 1 0.05713 1 0.90224 1 0.030618 1 9q gain 0 (0%) 485 NA NA NA NA 0.28254 1 1 1 0.10371 1 0.33815 1 0.52284 1 0.63567 1 0.60179 1 0.17809 1 10p gain 0 (0%) 487 NA NA NA NA 0.39007 1 1 1 0.98053 1 1 1 0.267 1 0.31138 1 0.76999 1 0.38929 1 10q gain 0 (0%) 489 NA NA NA NA 0.18428 1 1 1 0.71582 1 0.61472 1 0.68786 1 0.50758 1 0.83162 1 0.36659 1 11p gain 0 (0%) 476 0.76851 1 0.77815 1 0.00052935 0.283 0.77137 1 0.43744 1 0.3949 1 0.49103 1 0.26531 1 0.94985 1 0.40973 1 11q gain 0 (0%) 478 0.76851 1 0.77815 1 0.0011789 0.601 0.69815 1 0.54134 1 0.48032 1 0.58591 1 0.50493 1 0.94611 1 0.35537 1 12p gain 0 (0%) 415 0.19401 1 0.16527 1 7.9908e-07 0.000498 0.0010394 0.534 5.6676e-07 0.000355 0.013931 1 1.1022e-05 0.00658 1.8938e-05 0.0111 6.9492e-06 0.00419 0.71233 1 12q gain 0 (0%) 415 0.19401 1 0.16527 1 7.9908e-07 0.000498 0.0010394 0.534 5.6676e-07 0.000355 0.014143 1 1.1022e-05 0.00658 1.8938e-05 0.0111 6.9492e-06 0.00419 0.61721 1 13q gain 0 (0%) 479 NA NA NA NA 0.74221 1 0.076952 1 0.46728 1 0.77086 1 0.068473 1 0.63576 1 0.61422 1 0.91356 1 14q gain 0 (0%) 488 NA NA NA NA 0.049557 1 0.60825 1 0.86889 1 0.059647 1 0.0035445 1 0.047744 1 0.065944 1 0.0053427 1 15q gain 0 (0%) 479 NA NA NA NA 0.094725 1 0.57818 1 0.64372 1 0.23718 1 0.11643 1 0.37881 1 0.83526 1 0.50332 1 16p gain 0 (0%) 428 0.10023 1 0.21177 1 0.15276 1 0.68944 1 0.01148 1 0.066314 1 0.63473 1 0.11281 1 0.15601 1 0.5981 1 16q gain 0 (0%) 435 0.07055 1 0.17117 1 0.17461 1 0.90922 1 0.044287 1 0.12194 1 0.69647 1 0.33614 1 0.22959 1 0.90341 1 17p gain 0 (0%) 477 0.0052247 1 0.0066496 1 0.00035713 0.196 0.4196 1 0.32105 1 0.033572 1 0.19135 1 0.032663 1 0.72594 1 0.048765 1 17q gain 0 (0%) 471 0.0082659 1 0.010223 1 0.0048052 1 0.11876 1 0.55304 1 0.054698 1 0.25322 1 0.0094887 1 0.41669 1 0.022547 1 18p gain 0 (0%) 475 0.076398 1 0.039003 1 0.23818 1 0.15286 1 0.31926 1 0.14269 1 0.097694 1 0.40967 1 0.90877 1 0.74438 1 18q gain 0 (0%) 475 0.076398 1 0.039003 1 0.23818 1 0.15286 1 0.31926 1 0.14269 1 0.097694 1 0.40967 1 0.90877 1 0.74438 1 19p gain 0 (0%) 468 0.18897 1 0.1968 1 3.3746e-05 0.0196 0.33956 1 0.044845 1 0.39709 1 0.042771 1 0.011532 1 0.042287 1 0.065961 1 19q gain 0 (0%) 465 0.053628 1 0.058091 1 3.0044e-06 0.00185 0.20068 1 0.055965 1 0.15391 1 0.018535 1 0.004142 1 0.013987 1 0.06605 1 20p gain 0 (0%) 427 0.10193 1 0.10973 1 1.0457e-12 6.9e-10 0.00067423 0.357 0.00045333 0.244 0.00097912 0.507 3.5945e-06 0.00221 5.2899e-06 0.00321 2.5415e-06 0.00157 0.034351 1 20q gain 0 (0%) 425 0.075297 1 0.092006 1 6.2337e-14 4.13e-11 0.00067423 0.357 3.5385e-05 0.0205 0.00085487 0.446 3.298e-07 0.000207 1.4673e-06 0.00091 1.8346e-07 0.000116 0.034979 1 21q gain 0 (0%) 460 0.82033 1 0.81457 1 0.00011721 0.0663 0.09858 1 0.036798 1 0.83574 1 0.070901 1 0.080022 1 0.29502 1 0.81064 1 22q gain 0 (0%) 468 0.58042 1 0.039003 1 0.00039943 0.216 0.075575 1 0.45167 1 0.21702 1 0.82643 1 0.84565 1 0.9646 1 0.84436 1 Xq gain 0 (0%) 482 0.41403 1 0.43151 1 0.63929 1 0.57818 1 0.39249 1 0.48252 1 0.19785 1 0.2766 1 0.36314 1 0.30563 1 1p loss 0 (0%) 461 0.00083595 0.438 6.1992e-05 0.0355 0.0039487 1 0.19754 1 5.0549e-08 3.23e-05 0.00043538 0.235 0.012254 1 4.6432e-06 0.00283 0.018745 1 1.007e-10 6.52e-08 1q loss 0 (0%) 472 0.021718 1 0.0028644 1 2.0871e-05 0.0122 0.90381 1 0.00016788 0.0942 0.0019091 0.96 6.6528e-05 0.0379 6.2684e-07 0.000391 0.049287 1 2.8841e-11 1.88e-08 2p loss 0 (0%) 483 0.00024867 0.138 0.00037409 0.204 1.5215e-05 0.00898 0.45635 1 1.3686e-05 0.00812 0.00018904 0.106 4.7244e-07 0.000297 1.8734e-08 1.2e-05 0.00059758 0.318 1.2533e-12 8.26e-10 2q loss 0 (0%) 482 0.00024867 0.138 0.00037409 0.204 4.754e-06 0.0029 1 1 0.00012943 0.0727 4.4152e-05 0.0255 8.96e-08 5.69e-05 7.9136e-08 5.04e-05 0.00019855 0.111 4.8112e-12 3.15e-09 3p loss 0 (0%) 189 0.012955 1 0.010206 1 6.3714e-24 4.24e-21 0.00052055 0.278 0.0001198 0.0676 1.7769e-05 0.0104 3.8542e-11 2.51e-08 7.0891e-10 4.57e-07 4.2268e-05 0.0245 5.0825e-14 3.37e-11 3q loss 0 (0%) 420 0.70139 1 0.69959 1 0.0014361 0.725 0.19173 1 0.18206 1 0.0066057 1 0.51828 1 0.80379 1 0.82187 1 0.0098553 1 4p loss 0 (0%) 458 0.28864 1 0.29647 1 0.065781 1 0.27395 1 0.81614 1 0.94781 1 0.088816 1 0.36552 1 0.5131 1 0.74876 1 4q loss 0 (0%) 465 1 1 1 1 0.00022145 0.123 0.25535 1 0.25143 1 0.31278 1 0.063101 1 0.05733 1 0.96875 1 0.37116 1 6p loss 0 (0%) 435 0.013899 1 0.0028988 1 4.2674e-12 2.8e-09 0.0089899 1 0.00012166 0.0685 7.0349e-06 0.00423 0.00072213 0.38 0.0010519 0.538 2.8747e-09 1.85e-06 0.00039442 0.214 6q loss 0 (0%) 411 0.039296 1 0.012516 1 6.3378e-17 4.21e-14 0.12101 1 0.0013994 0.71 0.0010327 0.532 0.20388 1 0.47751 1 1.4245e-05 0.00843 0.0022635 1 8p loss 0 (0%) 399 0.77713 1 0.78081 1 0.047016 1 0.70561 1 0.72351 1 0.49983 1 0.18497 1 0.63325 1 0.17331 1 0.45046 1 8q loss 0 (0%) 456 0.49011 1 0.58627 1 0.74744 1 0.25514 1 0.53952 1 0.7855 1 0.11152 1 0.026589 1 0.70861 1 0.40997 1 9p loss 0 (0%) 406 0.37846 1 0.069376 1 9.2257e-25 6.15e-22 3.5676e-12 2.34e-09 0.0046325 1 0.0072553 1 1.3893e-11 9.06e-09 2.7121e-12 1.78e-09 8.7344e-09 5.6e-06 0.20099 1 9q loss 0 (0%) 401 0.37846 1 0.069376 1 4.4289e-26 2.96e-23 4.2989e-13 2.84e-10 0.00099938 0.516 0.010359 1 1.315e-12 8.65e-10 3.9392e-14 2.62e-11 3.8216e-10 2.46e-07 0.17316 1 10p loss 0 (0%) 461 0.026008 1 0.02869 1 0.0002012 0.112 0.38225 1 0.19525 1 0.036955 1 0.012254 1 0.019724 1 0.15453 1 0.00046991 0.252 10q loss 0 (0%) 445 0.097195 1 0.11948 1 0.0026344 1 0.040882 1 0.22014 1 0.012532 1 0.094952 1 0.12585 1 0.31235 1 0.014631 1 11p loss 0 (0%) 488 NA NA NA NA 0.12092 1 0.60825 1 0.15609 1 0.035855 1 0.35902 1 0.46204 1 0.54528 1 0.087946 1 11q loss 0 (0%) 486 NA NA NA NA 0.05266 1 0.82585 1 0.053318 1 0.21517 1 0.37721 1 0.31138 1 0.3494 1 0.029845 1 13q loss 0 (0%) 462 0.025253 1 0.02806 1 6.3588e-05 0.0364 0.24729 1 0.001372 0.698 0.0013857 0.704 0.0024962 1 0.00045951 0.247 0.00083783 0.438 0.00028462 0.157 14q loss 0 (0%) 335 0.0017916 0.903 0.00095642 0.496 2.0238e-10 1.31e-07 3.0568e-05 0.0178 6.6084e-12 4.32e-09 2.0759e-07 0.000131 6.9702e-11 4.52e-08 2.8039e-07 0.000177 4.3263e-06 0.00264 0.50712 1 15q loss 0 (0%) 481 0.58042 1 0.58403 1 0.021316 1 0.37272 1 0.45072 1 0.70387 1 0.073285 1 0.13618 1 0.23177 1 1 1 16q loss 0 (0%) 488 NA NA NA NA 0.013543 1 NA NA 0.16723 1 0.45624 1 1 1 0.29246 1 0.83162 1 0.26215 1 17p loss 0 (0%) 468 0.00011676 0.0662 0.00017823 0.0998 4.3019e-06 0.00263 0.90782 1 2.9244e-05 0.017 5.1787e-06 0.00314 1.9025e-06 0.00118 1.5033e-08 9.62e-06 4.9039e-07 0.000307 8.5376e-09 5.48e-06 17q loss 0 (0%) 481 0.00066805 0.355 0.00077017 0.404 0.00022423 0.124 0.45635 1 1.4598e-05 0.00863 1.0235e-05 0.00613 1.9121e-06 0.00118 7.9136e-08 5.04e-05 8.9765e-05 0.0511 4.0474e-11 2.63e-08 18p loss 0 (0%) 447 0.19401 1 0.43305 1 3.017e-06 0.00186 0.01939 1 0.018255 1 0.0047251 1 6.0578e-06 0.00366 0.00019604 0.109 0.00036016 0.197 0.0026242 1 18q loss 0 (0%) 445 0.2588 1 0.23793 1 3.6093e-06 0.00221 0.032401 1 0.055096 1 0.012751 1 2.8663e-05 0.0167 0.00057363 0.306 0.00094833 0.493 0.0054578 1 19p loss 0 (0%) 489 NA NA NA NA 0.18428 1 0.33163 1 0.2794 1 0.035855 1 0.34103 1 0.37884 1 0.83162 1 0.26215 1 20p loss 0 (0%) 487 NA NA NA NA 0.047496 1 1 1 0.017173 1 0.87678 1 0.267 1 0.74728 1 0.072132 1 0.23201 1 21q loss 0 (0%) 461 0.014517 1 0.021914 1 0.00036659 0.2 0.47862 1 0.0050057 1 0.039896 1 0.0019241 0.966 1.7176e-05 0.0101 0.2401 1 9.5148e-06 0.00571 22q loss 0 (0%) 482 NA NA NA NA 0.0050112 1 0.16071 1 0.046179 1 0.39292 1 0.00088773 0.463 0.019143 1 0.36314 1 0.53066 1 Xq loss 0 (0%) 486 0.039423 1 0.077238 1 0.30836 1 0.82585 1 0.38057 1 0.56426 1 0.067592 1 0.0076322 1 0.026872 1 0.0084587 1