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 Chi-square test_P Chi-square 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 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%) 482 0.46675 1 0.49146 1 0.00078799 0.494 1 1 0.40106 1 1 1 0.13048 1 0.50364 1 0.011356 1 0.072583 1 0.048344 1 0.20335 1 1q gain 0 (0%) 362 0.24994 1 0.29034 1 0.00018225 0.121 0.0060313 1 0.0012254 0.743 0.00071538 0.45 0.9014 1 0.96567 1 0.0024522 1 0.35496 1 0.15601 1 0.72134 1 2p gain 0 (0%) 451 0.42527 1 0.48132 1 2.1761e-19 1.79e-16 0.059562 1 0.17655 1 0.8017 1 0.037146 1 0.40867 1 0.46554 1 0.075428 1 0.11277 1 0.099958 1 2q gain 0 (0%) 462 0.34265 1 1 1 1.325e-20 1.1e-17 0.16483 1 0.065268 1 0.5746 1 0.0096383 1 0.40273 1 0.47695 1 0.022748 1 0.072707 1 0.062133 1 3p gain 0 (0%) 474 NA NA NA NA 1.9497e-20 1.61e-17 0.13617 1 0.52525 1 0.65189 1 0.27444 1 0.2538 1 0.18724 1 0.031919 1 0.31972 1 0.26805 1 3q gain 0 (0%) 452 0.1372 1 0.27248 1 3.8924e-21 3.23e-18 4.5689e-05 0.0315 0.38821 1 0.30068 1 0.13117 1 0.21538 1 0.0011538 0.703 2.4044e-05 0.017 0.017847 1 0.036798 1 4p gain 0 (0%) 497 NA NA NA NA 0.006474 1 0.46192 1 NA NA 0.14038 1 0.11622 1 0.77665 1 0.13166 1 0.019441 1 0.20689 1 0.058119 1 4q gain 0 (0%) 501 NA NA NA NA 0.23134 1 NA NA NA NA 0.37629 1 NA NA NA NA 0.57007 1 0.081782 1 NA NA NA NA 5p gain 0 (0%) 470 0.53641 1 0.27248 1 2.3869e-10 1.88e-07 0.0001691 0.113 0.058708 1 1 1 0.0046449 1 0.014092 1 0.00025091 0.164 1.7377e-05 0.0124 0.002654 1 0.0011624 0.707 5q gain 0 (0%) 495 NA NA NA NA 0.011599 1 0.42284 1 NA NA 1 1 NA NA NA NA 0.35688 1 0.088518 1 0.17074 1 0.044993 1 6p gain 0 (0%) 466 0.2533 1 0.09018 1 2.2359e-20 1.84e-17 0.05129 1 0.66066 1 1 1 0.067254 1 0.40867 1 0.013637 1 0.014353 1 0.099827 1 0.24816 1 6q gain 0 (0%) 472 0.2533 1 0.09018 1 3.3978e-17 2.79e-14 0.38472 1 0.40106 1 1 1 0.34186 1 0.30878 1 0.052738 1 0.03631 1 0.56019 1 0.64361 1 7p gain 0 (0%) 458 0.93531 1 0.86626 1 3.267e-14 2.65e-11 0.0066855 1 0.73304 1 0.21665 1 0.027205 1 0.5592 1 0.68503 1 0.64146 1 0.58035 1 0.19903 1 7q gain 0 (0%) 458 0.85548 1 1 1 2.9572e-15 2.41e-12 0.010594 1 0.88873 1 0.055165 1 0.14087 1 0.5592 1 0.54951 1 0.96609 1 0.89234 1 0.2028 1 8p gain 0 (0%) 414 0.70442 1 0.6094 1 1.5969e-19 1.32e-16 0.71802 1 0.13349 1 1 1 0.52181 1 0.44489 1 0.10287 1 0.038888 1 0.35983 1 0.27592 1 8q gain 0 (0%) 383 0.033593 1 0.033888 1 1.5032e-20 1.24e-17 0.5501 1 0.0049518 1 1 1 0.19599 1 0.90847 1 0.0013911 0.835 0.00080186 0.502 0.16548 1 0.29323 1 9p gain 0 (0%) 489 NA NA NA NA 0.062576 1 0.11661 1 NA NA 1 1 0.17513 1 0.11639 1 0.022543 1 0.023389 1 0.12107 1 0.39704 1 9q gain 0 (0%) 499 NA NA NA NA 0.31869 1 0.37424 1 NA NA NA NA NA NA NA NA 0.10843 1 0.053425 1 0.20689 1 1 1 10p gain 0 (0%) 416 0.0071379 1 0.047563 1 1.132e-06 0.00084 0.11904 1 0.28359 1 0.13573 1 0.553 1 0.62313 1 0.28143 1 0.0078937 1 0.062121 1 0.085877 1 10q gain 0 (0%) 423 0.0021162 1 0.026184 1 9.3339e-07 0.000695 0.28018 1 0.26814 1 0.18895 1 0.55036 1 0.34629 1 0.15799 1 0.0012469 0.754 0.072451 1 0.14107 1 11p gain 0 (0%) 496 0.1372 1 0.27248 1 0.076281 1 0.20698 1 0.10904 1 1 1 0.6233 1 0.77665 1 0.060752 1 0.30135 1 0.61174 1 0.90291 1 11q gain 0 (0%) 496 NA NA NA NA 0.066784 1 0.46192 1 0.10904 1 0.29906 1 NA NA NA NA 0.36777 1 0.54823 1 1 1 0.90291 1 12p gain 0 (0%) 466 0.64029 1 1 1 6.2048e-06 0.0045 0.0054931 1 0.9373 1 1 1 0.10716 1 0.072586 1 0.05189 1 0.016821 1 0.10926 1 0.040426 1 12q gain 0 (0%) 475 0.64029 1 1 1 0.00020828 0.137 0.08688 1 0.90119 1 1 1 0.27131 1 0.2704 1 0.36187 1 0.17681 1 0.42191 1 0.33369 1 13q gain 0 (0%) 483 NA NA NA NA 1.594e-06 0.00118 0.0031685 1 0.73455 1 0.36663 1 0.38084 1 0.38336 1 0.0023207 1 0.00056327 0.358 0.18022 1 0.046197 1 14q gain 0 (0%) 482 1 1 0.76885 1 0.00013517 0.0904 0.35511 1 0.2387 1 0.29227 1 0.0096383 1 0.045388 1 0.0049558 1 0.031108 1 0.093689 1 0.52849 1 15q gain 0 (0%) 498 NA NA NA NA 8.5426e-06 0.00616 0.84656 1 NA NA 1 1 NA NA NA NA 0.26267 1 1 1 0.31989 1 0.29241 1 16p gain 0 (0%) 493 NA NA NA NA 0.00094699 0.589 0.02178 1 0.24267 1 1 1 0.78191 1 0.77665 1 0.063376 1 0.12167 1 0.45868 1 0.23556 1 16q gain 0 (0%) 501 NA NA NA NA 0.0021285 1 1 1 NA NA 1 1 NA NA NA NA 0.5778 1 0.15517 1 NA NA NA NA 17p gain 0 (0%) 496 NA NA NA NA 0.025942 1 0.1684 1 NA NA 1 1 0.78191 1 0.77665 1 0.055115 1 0.14804 1 0.5467 1 0.49406 1 17q gain 0 (0%) 491 NA NA NA NA 0.00029789 0.195 0.013672 1 0.053132 1 1 1 0.11622 1 0.11037 1 0.0057143 1 0.053952 1 0.17753 1 0.12471 1 18p gain 0 (0%) 464 0.37937 1 0.09018 1 1.745e-13 1.41e-10 0.00013292 0.0891 0.092984 1 0.42867 1 0.00032767 0.213 0.01854 1 1.9671e-06 0.00145 2.0734e-09 1.62e-06 0.00085693 0.536 8.3512e-05 0.0566 18q gain 0 (0%) 483 0.1372 1 0.019423 1 1.2905e-05 0.00923 0.027006 1 NA NA 1 1 0.02435 1 0.16865 1 0.00014026 0.0936 4.5563e-05 0.0314 0.010514 1 0.00309 1 19p gain 0 (0%) 469 0.15099 1 0.027226 1 3.6346e-14 2.95e-11 0.01134 1 0.25465 1 0.029025 1 0.073163 1 0.059095 1 0.00020379 0.135 0.0010896 0.665 0.21192 1 0.064667 1 19q gain 0 (0%) 471 0.6894 1 0.27248 1 3.4559e-13 2.78e-10 0.0085879 1 0.047685 1 0.36663 1 0.13048 1 0.10709 1 0.00010637 0.0715 7.7362e-05 0.0526 0.11012 1 0.025988 1 20p gain 0 (0%) 438 0.039088 1 0.0046615 1 9.2487e-25 7.7e-22 4.8292e-05 0.0331 0.29078 1 1 1 0.0068482 1 0.0025147 1 9.7898e-06 0.00704 4.0004e-07 0.000302 0.00020682 0.137 4.7232e-05 0.0325 20q gain 0 (0%) 427 0.0080894 1 0.0010465 0.645 1.3671e-29 1.14e-26 6.6563e-07 0.000499 0.19154 1 0.58017 1 0.00031537 0.206 0.00035108 0.227 2.8949e-08 2.22e-05 4.2984e-09 3.34e-06 2.3993e-05 0.017 5.9619e-07 0.000447 21q gain 0 (0%) 479 NA NA NA NA 1.4021e-07 0.000106 0.21591 1 0.2367 1 0.55767 1 0.057632 1 0.045388 1 0.0057498 1 0.022638 1 0.43465 1 0.13613 1 22q gain 0 (0%) 495 NA NA NA NA 0.00020174 0.134 0.00051481 0.328 NA NA 0.37629 1 0.27131 1 0.2704 1 0.051246 1 0.0070011 1 0.037907 1 0.048384 1 Xq gain 0 (0%) 491 NA NA NA NA 0.00033035 0.214 0.19784 1 NA NA 0.37629 1 0.02435 1 0.010934 1 0.036302 1 0.1472 1 0.042961 1 0.031637 1 1p loss 0 (0%) 492 NA NA NA NA 4.0762e-11 3.23e-08 0.0029264 1 NA NA 1 1 0.4779 1 0.49746 1 0.64742 1 0.0017294 1 0.26179 1 0.19181 1 1q loss 0 (0%) 501 NA NA NA NA 0.23134 1 0.063365 1 NA NA NA NA NA NA NA NA 0.13542 1 0.36669 1 0.60722 1 0.08815 1 2p loss 0 (0%) 499 NA NA NA NA 0.070953 1 0.46192 1 NA NA 0.37629 1 NA NA NA NA 0.67402 1 0.21059 1 1 1 0.13726 1 2q loss 0 (0%) 494 NA NA NA NA 0.0009995 0.619 0.085937 1 NA NA 0.14038 1 0.29992 1 0.036617 1 0.12395 1 0.05242 1 0.45868 1 0.022708 1 3p loss 0 (0%) 471 NA NA NA NA 1.2162e-13 9.83e-11 3.0898e-05 0.0218 0.0024632 1 0.042933 1 0.014303 1 0.031238 1 0.00053689 0.341 3.2185e-05 0.0226 0.043599 1 0.0046485 1 3q loss 0 (0%) 490 NA NA NA NA 3.7761e-05 0.0263 0.013142 1 0.024047 1 0.55767 1 0.11622 1 0.77665 1 0.26275 1 0.2548 1 0.51924 1 0.26147 1 4p loss 0 (0%) 437 0.051454 1 0.0075524 1 1.188e-24 9.88e-22 3.1238e-10 2.45e-07 0.033892 1 0.39315 1 0.0015799 0.943 0.0010331 0.637 6.9171e-12 5.53e-09 1.5972e-10 1.26e-07 9.8198e-05 0.0664 5.6652e-06 0.00411 4q loss 0 (0%) 439 0.6894 1 0.27248 1 6.5475e-25 5.46e-22 3.0454e-10 2.39e-07 0.13113 1 0.77642 1 0.0015373 0.919 0.0031486 1 6.7236e-07 0.000503 4.3423e-09 3.37e-06 0.00024378 0.16 3.5627e-05 0.0249 5p loss 0 (0%) 476 0.37937 1 0.09018 1 2.5221e-09 1.96e-06 0.00099525 0.617 0.1459 1 0.30068 1 0.25034 1 0.79849 1 0.0089771 1 0.0014435 0.865 0.085993 1 0.063692 1 5q loss 0 (0%) 457 0.051454 1 0.0075524 1 3.3137e-17 2.72e-14 2.9393e-08 2.25e-05 0.04811 1 0.15296 1 0.067066 1 0.12831 1 3.7074e-05 0.0258 5.4163e-07 0.000407 0.00089569 0.559 0.00010589 0.0713 6p loss 0 (0%) 494 NA NA NA NA 4.1779e-05 0.029 0.046248 1 NA NA 1 1 0.17972 1 0.012144 1 0.15594 1 0.005857 1 0.47433 1 0.30056 1 6q loss 0 (0%) 492 0.6894 1 0.27248 1 3.1009e-05 0.0218 0.035568 1 0.85846 1 0.55767 1 0.29992 1 0.036617 1 0.087442 1 0.0038913 1 0.28214 1 0.11985 1 7p loss 0 (0%) 474 0.1372 1 0.019423 1 2.8948e-09 2.25e-06 0.0031824 1 0.15846 1 0.20053 1 0.43018 1 0.16865 1 0.00051097 0.326 0.028203 1 0.14083 1 0.060817 1 7q loss 0 (0%) 476 NA NA NA NA 4.603e-12 3.69e-09 6.1247e-05 0.0418 0.19732 1 0.012085 1 0.15384 1 0.26698 1 4.2095e-06 0.00308 0.00040693 0.262 0.021751 1 0.0012992 0.783 8p loss 0 (0%) 448 0.0080894 1 0.0010465 0.645 4.1708e-24 3.47e-21 6.0236e-11 4.76e-08 0.165 1 0.18109 1 0.0013238 0.797 1.5011e-05 0.0107 1.3626e-13 1.1e-10 2.7209e-14 2.21e-11 7.8927e-07 0.00059 1.325e-07 0.000101 8q loss 0 (0%) 491 NA NA NA NA 1.2712e-05 0.0091 0.00031957 0.208 NA NA 1 1 0.17513 1 0.11639 1 0.011195 1 0.0010142 0.627 0.00058748 0.371 0.0044668 1 9p loss 0 (0%) 427 0.012904 1 0.0019294 1 4.1275e-30 3.45e-27 3.2156e-06 0.00236 0.011722 1 0.24436 1 0.044341 1 0.64592 1 1.1369e-08 8.78e-06 9.2584e-07 0.000691 0.085474 1 0.0048111 1 9q loss 0 (0%) 411 0.0005666 0.359 4.1747e-05 0.029 1.7965e-37 1.51e-34 1.7373e-06 0.00128 0.013661 1 0.35955 1 0.0012801 0.773 0.11076 1 4.1344e-13 3.32e-10 5.3617e-07 0.000404 0.030314 1 0.010935 1 10p loss 0 (0%) 481 0.1372 1 0.019423 1 1.502e-09 1.17e-06 0.0003055 0.199 0.47447 1 0.63255 1 0.29124 1 0.14605 1 3.4793e-06 0.00255 0.0040427 1 0.11812 1 0.012923 1 10q loss 0 (0%) 480 NA NA NA NA 9.6475e-09 7.46e-06 0.0017201 1 0.45123 1 1 1 0.13048 1 0.10709 1 0.00012043 0.0808 0.0080759 1 0.15478 1 0.074601 1 11p loss 0 (0%) 449 NA NA NA NA 1.71e-22 1.42e-19 1.494e-05 0.0107 0.18182 1 0.75005 1 0.0097288 1 0.068467 1 1.32e-07 1e-04 0.00013907 0.0929 0.01233 1 0.00057779 0.365 11q loss 0 (0%) 457 NA NA NA NA 1.004e-16 8.2e-14 0.00071636 0.45 0.92479 1 0.71272 1 0.037425 1 0.19954 1 1.3899e-06 0.00103 0.00050102 0.32 0.062177 1 0.00048063 0.308 12p loss 0 (0%) 478 NA NA NA NA 3.447e-11 2.74e-08 6.9981e-05 0.0477 0.057656 1 1 1 0.015101 1 0.0076299 1 1.5333e-08 1.18e-05 0.00010495 0.0707 0.0023645 1 0.00020433 0.135 12q loss 0 (0%) 485 NA NA NA NA 1.5394e-08 1.18e-05 4.3047e-05 0.0298 0.30993 1 0.42867 1 0.0016219 0.967 5.8766e-05 0.0401 3.4987e-05 0.0245 1.8708e-05 0.0133 0.0026385 1 0.0006681 0.421 13q loss 0 (0%) 443 0.6894 1 0.27248 1 3.8906e-17 3.19e-14 7.7686e-05 0.0527 0.16118 1 0.39315 1 0.19292 1 0.20977 1 2.7548e-05 0.0194 0.00020007 0.133 0.446 1 0.24261 1 14q loss 0 (0%) 461 0.0080894 1 0.0010465 0.645 7.5146e-17 6.15e-14 8.3352e-09 6.45e-06 0.084745 1 0.0051992 1 0.035638 1 0.027667 1 1.2395e-05 0.00889 1.0481e-11 8.35e-09 4.6031e-06 0.00336 1.1021e-05 0.00791 15q loss 0 (0%) 420 0.0020193 1 0.00021801 0.143 6.8007e-35 5.71e-32 9.3111e-12 7.43e-09 0.00259 1 0.26661 1 2.6073e-10 2.05e-07 4.488e-07 0.000338 1.3884e-14 1.13e-11 4.7207e-14 3.82e-11 3.2554e-06 0.00239 9.955e-07 0.00074 16p loss 0 (0%) 431 0.0080894 1 0.0010465 0.645 1.538e-30 1.29e-27 1.8571e-09 1.45e-06 0.10515 1 0.60038 1 3.4675e-08 2.65e-05 9.3383e-07 0.000695 4.6394e-12 3.72e-09 6.3487e-11 5.02e-08 5.7489e-05 0.0393 7.3173e-06 0.00529 16q loss 0 (0%) 390 0.0032363 1 0.0004537 0.291 7.7213e-37 6.49e-34 2.5485e-11 2.03e-08 0.23685 1 1 1 8.8908e-08 6.77e-05 1.7937e-06 0.00132 9.4487e-14 7.64e-11 2.9014e-10 2.28e-07 2.0218e-05 0.0143 1.4621e-07 0.000111 17p loss 0 (0%) 393 0.0032363 1 0.0004537 0.291 4.957e-54 4.18e-51 2.1663e-12 1.74e-09 0.00057115 0.362 0.66522 1 7.4078e-06 0.00535 0.00010377 0.07 2.2367e-18 1.84e-15 3.2229e-10 2.52e-07 9.2695e-05 0.0628 2.0512e-06 0.00151 17q loss 0 (0%) 430 0.0080894 1 0.0010465 0.645 8.265e-32 6.93e-29 3.6573e-05 0.0255 0.092362 1 0.61178 1 0.0041936 1 0.0089313 1 1.7438e-08 1.34e-05 3.3318e-05 0.0234 0.0030809 1 0.00095231 0.591 18p loss 0 (0%) 468 NA NA NA NA 1.7322e-11 1.38e-08 0.00041583 0.267 0.32575 1 0.74551 1 0.36924 1 0.60811 1 0.003903 1 0.00090894 0.566 0.034559 1 0.0062007 1 18q loss 0 (0%) 454 NA NA NA NA 2.699e-16 2.2e-13 4.8096e-05 0.033 0.88341 1 0.76978 1 0.027323 1 0.29263 1 5.3544e-05 0.0367 4.6813e-06 0.00341 0.017847 1 0.0041682 1 19p loss 0 (0%) 468 NA NA NA NA 5.0432e-12 4.03e-09 2.0104e-09 1.57e-06 0.28546 1 0.73096 1 0.0076019 1 0.0048297 1 1.3485e-06 0.000999 5.5217e-07 0.000415 1.4246e-05 0.0102 5.6201e-08 4.29e-05 19q loss 0 (0%) 475 NA NA NA NA 1.1942e-08 9.21e-06 7.2295e-06 0.00523 0.56301 1 1 1 0.037146 1 0.010664 1 4.1353e-05 0.0287 3.5675e-05 0.0249 0.0003254 0.212 5.3131e-06 0.00386 20p loss 0 (0%) 488 NA NA NA NA 9.5051e-06 0.00684 0.083037 1 0.24267 1 0.63255 1 0.20663 1 1 1 0.0031292 1 0.023389 1 0.18748 1 0.18744 1 20q loss 0 (0%) 497 NA NA NA NA 0.0081307 1 0.01457 1 NA NA 0.52818 1 NA NA NA NA 0.034955 1 0.019441 1 0.11677 1 0.023813 1 21q loss 0 (0%) 470 0.039088 1 0.0046615 1 3.0865e-08 2.36e-05 0.0011988 0.728 0.09504 1 0.75005 1 0.17551 1 0.12597 1 0.00039671 0.256 4.3323e-05 0.0299 0.00033414 0.216 0.00021057 0.139 22q loss 0 (0%) 414 0.0080894 1 0.0010465 0.645 1.0188e-37 8.58e-35 2.0082e-07 0.000152 0.072103 1 1 1 0.014219 1 0.049104 1 5.304e-11 4.2e-08 1.823e-07 0.000138 0.044495 1 0.0040161 1 Xq loss 0 (0%) 488 NA NA NA NA 4.76e-06 0.00347 0.0017341 1 0.61718 1 0.63255 1 0.79967 1 0.11639 1 0.062921 1 0.0013882 0.834 0.01441 1 0.006114 1