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 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 Fisher's exact test_P Fisher's exact test_Q Fisher's exact test_P Fisher's exact test_Q 1p gain 0 (0%) 499 NA NA NA NA 0.10534 1 NA NA 0.43887 1 0.035855 1 0.84555 1 0.85029 1 0.4573 1 1 1 NA NA NA NA 1q gain 0 (0%) 472 0.61119 1 0.6172 1 2.0852e-08 1.57e-05 0.60988 1 0.43377 1 0.19022 1 0.0097169 1 0.15038 1 0.013372 1 0.18921 1 0.32173 1 0.38652 1 2p gain 0 (0%) 455 0.56067 1 0.40029 1 1.959e-05 0.0135 0.57885 1 0.046154 1 0.78296 1 0.14408 1 0.078453 1 0.2281 1 0.16042 1 0.23185 1 0.60482 1 2q gain 0 (0%) 454 0.56067 1 0.40029 1 0.00040618 0.263 0.47882 1 0.052756 1 0.86158 1 0.051935 1 0.049818 1 0.14587 1 0.16042 1 0.4974 1 0.39708 1 3p gain 0 (0%) 497 NA NA NA NA 0.20369 1 1 1 0.10217 1 0.0032938 1 0.29418 1 0.16078 1 0.011355 1 0.052832 1 0.33546 1 0.46969 1 3q gain 0 (0%) 475 0.024921 1 0.028901 1 4.3826e-07 0.000324 0.05251 1 0.007183 1 0.00010715 0.0718 0.00070456 0.447 0.0052174 1 0.00012609 0.0839 0.0041593 1 0.0012407 0.759 0.21034 1 4p gain 0 (0%) 496 NA NA NA NA 0.12082 1 0.61532 1 0.42832 1 0.080261 1 0.025659 1 0.37796 1 0.00050042 0.321 0.040706 1 NA NA NA NA 4q gain 0 (0%) 496 NA NA NA NA 0.48562 1 0.7899 1 0.87831 1 0.33815 1 0.011216 1 0.5092 1 0.0039355 1 0.14678 1 NA NA NA NA 5p gain 0 (0%) 361 0.59284 1 0.51614 1 0.00027296 0.179 0.1957 1 0.081729 1 0.054605 1 0.045779 1 0.0084423 1 0.036235 1 0.0059502 1 0.11794 1 0.029555 1 5q gain 0 (0%) 345 0.10537 1 0.068922 1 0.003077 1 0.18584 1 0.1584 1 0.17451 1 0.038112 1 0.0051214 1 0.11594 1 0.0014103 0.857 0.35741 1 0.041343 1 6p gain 0 (0%) 498 NA NA NA NA 0.87575 1 0.68265 1 0.8188 1 0.87678 1 0.21454 1 0.44902 1 0.34197 1 0.38929 1 NA NA NA NA 6q gain 0 (0%) 499 NA NA NA NA 0.5357 1 0.61532 1 0.57144 1 0.62591 1 0.44232 1 0.57135 1 0.73725 1 0.43074 1 NA NA NA NA 7p gain 0 (0%) 376 0.87675 1 1 1 1.7465e-09 1.33e-06 0.040031 1 0.00026802 0.176 0.0056517 1 0.067954 1 0.082377 1 0.025081 1 0.70261 1 0.017149 1 0.28227 1 7q gain 0 (0%) 374 0.87675 1 1 1 1.8359e-09 1.4e-06 0.029729 1 0.00011777 0.0787 0.00071795 0.455 0.058061 1 0.13146 1 0.012911 1 0.48104 1 0.0051758 1 0.099412 1 8p gain 0 (0%) 488 NA NA NA NA 1.7356e-05 0.012 0.063494 1 0.086779 1 0.14595 1 0.00097842 0.607 0.00068297 0.434 0.0030191 1 0.11654 1 0.0029628 1 0.046711 1 8q gain 0 (0%) 468 0.053628 1 0.062305 1 5.9402e-11 4.57e-08 0.0006132 0.391 0.010176 1 0.044916 1 1.1473e-07 8.55e-05 4.879e-05 0.033 6.766e-06 0.00478 0.018229 1 2.1202e-06 0.00154 0.00012389 0.0825 9p gain 0 (0%) 496 NA NA NA NA 0.38505 1 0.7899 1 0.17017 1 0.17028 1 0.10317 1 0.05713 1 0.90224 1 0.030618 1 0.054885 1 0.57731 1 9q gain 0 (0%) 496 NA NA NA NA 0.068012 1 0.45562 1 0.10371 1 0.33815 1 0.52284 1 0.63567 1 0.60179 1 0.17809 1 0.16274 1 0.81683 1 10p gain 0 (0%) 498 NA NA NA NA 0.44552 1 1 1 0.98053 1 1 1 0.267 1 0.31138 1 0.76999 1 0.38929 1 1 1 1 1 10q gain 0 (0%) 500 NA NA NA NA 0.16408 1 1 1 0.71582 1 0.61472 1 0.68786 1 0.50758 1 0.83162 1 0.36659 1 NA NA NA NA 11p gain 0 (0%) 487 0.76851 1 0.78254 1 0.01691 1 0.65908 1 0.43744 1 0.3949 1 0.49103 1 0.26531 1 0.94985 1 0.40973 1 0.25941 1 0.63365 1 11q gain 0 (0%) 489 0.76851 1 0.78254 1 0.047116 1 0.57168 1 0.54134 1 0.48032 1 0.58591 1 0.50493 1 0.94611 1 0.35537 1 0.53778 1 1 1 12p gain 0 (0%) 424 0.19401 1 0.20097 1 1.3502e-08 1.02e-05 0.0027348 1 5.6676e-07 0.000417 0.013931 1 1.1022e-05 0.00772 1.8938e-05 0.0131 6.9492e-06 0.0049 0.71233 1 3.3632e-06 0.00242 0.00095756 0.596 12q gain 0 (0%) 423 0.19401 1 0.20097 1 6.4238e-09 4.86e-06 0.0027348 1 1.4633e-07 0.000109 0.010396 1 6.0642e-06 0.00429 9.2165e-06 0.00648 3.2112e-06 0.00231 0.6206 1 1.1517e-06 0.000841 0.00033266 0.217 13q gain 0 (0%) 490 NA NA NA NA 0.83245 1 0.05452 1 0.46728 1 0.77086 1 0.068473 1 0.63576 1 0.61422 1 0.91356 1 0.90197 1 0.73097 1 14q gain 0 (0%) 499 NA NA NA NA 0.061006 1 0.61532 1 0.86889 1 0.059647 1 0.0035445 1 0.047744 1 0.065944 1 0.0053427 1 NA NA NA NA 15q gain 0 (0%) 490 NA NA NA NA 0.065196 1 0.57749 1 0.64372 1 0.23718 1 0.11643 1 0.37881 1 0.83526 1 0.50332 1 0.45877 1 0.61995 1 16p gain 0 (0%) 436 0.10023 1 0.30233 1 0.10532 1 0.64214 1 0.01148 1 0.066314 1 0.63473 1 0.11281 1 0.15601 1 0.5981 1 0.065724 1 0.1697 1 16q gain 0 (0%) 443 0.07055 1 0.17446 1 0.1007 1 0.8918 1 0.044287 1 0.12194 1 0.69647 1 0.33614 1 0.22959 1 0.90341 1 0.054236 1 0.3529 1 17p gain 0 (0%) 488 0.0052247 1 0.0066496 1 0.0040542 1 0.42452 1 0.32105 1 0.033572 1 0.19135 1 0.032663 1 0.72594 1 0.048765 1 0.33546 1 0.10899 1 17q gain 0 (0%) 482 0.0082659 1 0.01062 1 0.0091949 1 0.16197 1 0.55304 1 0.054698 1 0.25322 1 0.0094887 1 0.41669 1 0.022547 1 0.059614 1 0.079278 1 18p gain 0 (0%) 486 0.076398 1 0.043624 1 0.4357 1 0.15609 1 0.31926 1 0.14269 1 0.097694 1 0.40967 1 0.90877 1 0.74438 1 0.41672 1 0.26411 1 18q gain 0 (0%) 486 0.076398 1 0.043624 1 0.4357 1 0.15609 1 0.31926 1 0.14269 1 0.097694 1 0.40967 1 0.90877 1 0.74438 1 0.41672 1 0.26411 1 19p gain 0 (0%) 479 0.18897 1 0.20731 1 1.4682e-05 0.0102 0.2878 1 0.044845 1 0.39709 1 0.042771 1 0.011532 1 0.042287 1 0.065961 1 0.016469 1 0.30891 1 19q gain 0 (0%) 476 0.053628 1 0.062305 1 1.5317e-06 0.00112 0.20712 1 0.055965 1 0.15391 1 0.018535 1 0.004142 1 0.013987 1 0.06605 1 0.0075821 1 0.18413 1 20p gain 0 (0%) 437 0.10193 1 0.14864 1 1.9289e-14 1.51e-11 0.0019806 1 0.00045333 0.292 0.00097912 0.607 3.5945e-06 0.00258 5.2899e-06 0.00377 2.5415e-06 0.00184 0.034351 1 2.9768e-08 2.23e-05 4.5863e-05 0.0311 20q gain 0 (0%) 435 0.075297 1 0.10636 1 1.3743e-15 1.08e-12 0.0019806 1 3.5385e-05 0.0242 0.00085487 0.537 3.298e-07 0.000244 1.4673e-06 0.00107 1.8346e-07 0.000136 0.034979 1 2.6028e-09 1.98e-06 5.3076e-06 0.00378 21q gain 0 (0%) 469 0.82033 1 0.81824 1 0.00075731 0.478 0.094609 1 0.036798 1 0.83574 1 0.070901 1 0.080022 1 0.29502 1 0.81064 1 0.041993 1 0.0038873 1 22q gain 0 (0%) 479 0.58042 1 0.043624 1 0.0024291 1 0.047539 1 0.45167 1 0.21702 1 0.82643 1 0.84565 1 0.9646 1 0.84436 1 0.45328 1 0.86197 1 Xq gain 0 (0%) 495 NA NA NA NA 0.47221 1 0.85097 1 0.12587 1 0.33815 1 0.065059 1 0.15314 1 0.19823 1 0.16306 1 1 1 0.73051 1 1p loss 0 (0%) 472 0.00083595 0.527 5.3764e-05 0.0363 2.7723e-05 0.019 0.47485 1 5.0549e-08 3.79e-05 0.00043538 0.281 0.012254 1 4.6432e-06 0.00332 0.018745 1 1.007e-10 7.71e-08 0.62339 1 0.028332 1 1q loss 0 (0%) 484 0.010729 1 0.013331 1 6.8492e-07 0.000502 1 1 0.00086281 0.541 0.0011155 0.685 1.8963e-05 0.0131 3.1744e-06 0.00229 0.084079 1 4.2165e-10 3.22e-07 0.2243 1 0.0073224 1 2p loss 0 (0%) 494 0.00024867 0.163 0.00038936 0.253 6.1255e-07 0.00045 0.47032 1 1.3686e-05 0.00955 0.00018904 0.125 4.7244e-07 0.000349 1.8734e-08 1.41e-05 0.00059758 0.382 1.2533e-12 9.75e-10 1 1 0.018426 1 2q loss 0 (0%) 493 0.00024867 0.163 0.00038936 0.253 2.3783e-06 0.00172 1 1 0.00012943 0.0859 4.4152e-05 0.03 8.96e-08 6.68e-05 7.9136e-08 5.92e-05 0.00019855 0.131 4.8112e-12 3.72e-09 1 1 0.018426 1 3p loss 0 (0%) 193 0.010564 1 0.0092852 1 9.3488e-35 7.36e-32 5.4918e-06 0.0039 0.00010498 0.0705 1.5412e-05 0.0107 2.0885e-11 1.61e-08 7.0891e-10 5.41e-07 4.2268e-05 0.0288 1.4882e-14 1.17e-11 0.02087 1 3.6438e-05 0.0249 3q loss 0 (0%) 430 0.70139 1 0.69962 1 2.7189e-06 0.00196 0.19436 1 0.095454 1 0.0066057 1 0.51828 1 0.80379 1 0.82187 1 0.0074706 1 0.16242 1 0.2213 1 4p loss 0 (0%) 469 0.28864 1 0.29792 1 0.0035363 1 0.13245 1 0.81614 1 0.94781 1 0.088816 1 0.36552 1 0.5131 1 0.74876 1 0.43594 1 0.49854 1 4q loss 0 (0%) 476 1 1 1 1 2.6588e-05 0.0183 0.11182 1 0.25143 1 0.31278 1 0.063101 1 0.05733 1 0.96875 1 0.37116 1 0.22656 1 0.19597 1 6p loss 0 (0%) 445 0.013899 1 0.0040792 1 7.1338e-11 5.47e-08 0.002772 1 0.00012166 0.0811 7.0349e-06 0.00495 0.00072213 0.457 0.0010519 0.648 2.8747e-09 2.18e-06 0.00039442 0.256 0.0009729 0.604 0.00015462 0.103 6q loss 0 (0%) 419 0.039296 1 0.020472 1 2.4575e-09 1.87e-06 0.13348 1 0.0013994 0.852 0.0010327 0.637 0.20388 1 0.47751 1 1.4245e-05 0.00993 0.0022635 1 0.031157 1 0.0011758 0.721 8p loss 0 (0%) 405 0.77713 1 0.78375 1 0.0033881 1 0.65428 1 0.73834 1 0.6558 1 0.1413 1 0.56142 1 0.15752 1 0.42257 1 0.44634 1 0.52131 1 8q loss 0 (0%) 464 0.49011 1 0.59084 1 0.93369 1 0.15121 1 0.4757 1 0.69952 1 0.18804 1 0.055243 1 0.91022 1 0.27208 1 0.50064 1 0.25826 1 9p loss 0 (0%) 415 0.37846 1 0.12379 1 6.5705e-33 5.16e-30 2.9698e-12 2.3e-09 0.0046325 1 0.0072553 1 1.3893e-11 1.07e-08 2.7121e-12 2.1e-09 8.7344e-09 6.59e-06 0.20099 1 9.0333e-07 0.000661 1.1676e-05 0.00816 9q loss 0 (0%) 410 0.37846 1 0.12379 1 2.791e-34 2.19e-31 2.7811e-13 2.17e-10 0.00099938 0.618 0.010359 1 1.315e-12 1.02e-09 3.9392e-14 3.08e-11 3.8216e-10 2.92e-07 0.17316 1 9.4471e-07 0.000691 3.2769e-05 0.0224 10p loss 0 (0%) 472 0.026008 1 0.030636 1 3.8818e-06 0.00278 0.15729 1 0.19525 1 0.036955 1 0.012254 1 0.019724 1 0.15453 1 0.00046991 0.302 0.18956 1 0.050436 1 10q loss 0 (0%) 456 0.097195 1 0.12088 1 0.0010719 0.659 0.014975 1 0.22014 1 0.012532 1 0.094952 1 0.12585 1 0.31235 1 0.014631 1 0.50609 1 0.015136 1 11p loss 0 (0%) 499 NA NA NA NA 0.031326 1 0.61532 1 0.15609 1 0.035855 1 0.35902 1 0.46204 1 0.54528 1 0.087946 1 NA NA NA NA 11q loss 0 (0%) 497 NA NA NA NA 0.0053392 1 0.82663 1 0.053318 1 0.21517 1 0.37721 1 0.31138 1 0.3494 1 0.029845 1 0.33546 1 0.10899 1 13q loss 0 (0%) 473 0.025253 1 0.038105 1 5.9738e-06 0.00424 0.088845 1 0.001372 0.838 0.0013857 0.845 0.0024962 1 0.00045951 0.296 0.00083783 0.527 0.00028462 0.186 0.034323 1 0.0014876 0.901 14q loss 0 (0%) 342 0.0017916 1 0.0019678 1 7.3524e-13 5.73e-10 6.2474e-05 0.0422 6.6084e-12 5.11e-09 2.0759e-07 0.000154 6.9702e-11 5.35e-08 2.8039e-07 0.000208 4.3263e-06 0.0031 0.50712 1 0.031573 1 0.013038 1 15q loss 0 (0%) 492 0.58042 1 0.58612 1 0.0046092 1 0.45562 1 0.45072 1 0.70387 1 0.073285 1 0.13618 1 0.23177 1 1 1 0.059614 1 0.079278 1 16q loss 0 (0%) 498 NA NA NA NA 0.24437 1 0.34511 1 0.16723 1 0.45624 1 1 1 0.29246 1 0.83162 1 0.26215 1 0.8262 1 0.034821 1 17p loss 0 (0%) 478 0.00011676 0.0781 0.00019745 0.13 6.4411e-07 0.000473 0.60806 1 2.9244e-05 0.02 5.1787e-06 0.0037 1.9025e-06 0.00138 1.5033e-08 1.13e-05 4.9039e-07 0.000361 8.5376e-09 6.45e-06 0.079633 1 0.0064971 1 17q loss 0 (0%) 492 0.00066805 0.426 0.00089279 0.558 6.8422e-06 0.00483 0.47032 1 1.4598e-05 0.0102 1.0235e-05 0.00717 1.9121e-06 0.00139 7.9136e-08 5.92e-05 8.9765e-05 0.0604 4.0474e-11 3.12e-08 1 1 0.018426 1 18p loss 0 (0%) 458 0.19401 1 0.48625 1 4.4062e-05 0.03 0.027756 1 0.018255 1 0.0047251 1 6.0578e-06 0.00429 0.00019604 0.129 0.00036016 0.234 0.0026242 1 0.0007355 0.465 0.00019449 0.129 18q loss 0 (0%) 456 0.2588 1 0.30233 1 6.3021e-05 0.0425 0.046802 1 0.055096 1 0.012751 1 2.8663e-05 0.0197 0.00057363 0.367 0.00094833 0.591 0.0054578 1 0.0005163 0.331 0.00092275 0.576 19p loss 0 (0%) 500 NA NA NA NA 0.12572 1 0.34511 1 0.2794 1 0.035855 1 0.34103 1 0.37884 1 0.83162 1 0.26215 1 NA NA NA NA 20p loss 0 (0%) 498 NA NA NA NA 0.20915 1 1 1 0.017173 1 0.87678 1 0.267 1 0.74728 1 0.072132 1 0.23201 1 NA NA NA NA 21q loss 0 (0%) 470 0.014517 1 0.023819 1 0.00010597 0.0711 0.15109 1 0.0050057 1 0.039896 1 0.0019241 1 1.7176e-05 0.0119 0.2401 1 9.5148e-06 0.00668 0.58709 1 0.11574 1 22q loss 0 (0%) 492 NA NA NA NA 0.0014252 0.865 0.011237 1 0.046179 1 0.39292 1 0.00088773 0.556 0.019143 1 0.36314 1 0.53066 1 0.61244 1 0.11347 1 Xq loss 0 (0%) 494 0.25555 1 0.27216 1 0.71708 1 0.62589 1 0.31024 1 0.2869 1 0.067592 1 0.0076322 1 0.030752 1 0.04285 1 NA NA NA NA