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 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 Fisher's exact test_P Fisher's exact test_Q Fisher's exact test_P Fisher's exact test_Q 1p gain 0 (0%) 471 0.68266 1 0.1836 1 0.035042 1 0.66105 1 0.40106 1 1 1 0.18151 1 0.28962 1 0.0074301 1 0.075767 1 1q gain 0 (0%) 354 0.11087 1 0.63732 1 3.0433e-07 0.000174 0.005342 1 0.0012254 0.54 0.00071538 0.325 3.3148e-06 0.00182 9.2345e-07 0.000517 3.7404e-07 0.000213 0.017759 1 2p gain 0 (0%) 441 0.23344 1 0.29788 1 5.4103e-11 3.42e-08 0.058815 1 0.17655 1 0.8017 1 0.23768 1 0.43383 1 0.018437 1 0.16208 1 2q gain 0 (0%) 452 0.51784 1 0.76949 1 4.8278e-11 3.06e-08 0.175 1 0.065268 1 0.5746 1 0.30009 1 0.62396 1 0.015034 1 0.11652 1 3p gain 0 (0%) 464 NA NA NA NA 4.1488e-19 2.82e-16 0.12145 1 0.52525 1 0.65189 1 0.014933 1 0.042907 1 0.3378 1 0.22479 1 3q gain 0 (0%) 442 0.17647 1 0.054256 1 3.4119e-22 2.34e-19 2.4886e-05 0.013 0.38821 1 0.30068 1 1.1907e-06 0.000666 5.1415e-05 0.0261 2.0651e-05 0.0109 0.00026258 0.126 4p gain 0 (0%) 486 NA NA NA NA 0.0038953 1 0.12499 1 NA NA 0.14038 1 0.039552 1 0.15399 1 0.022869 1 0.028095 1 5p gain 0 (0%) 460 0.86016 1 0.6235 1 3.0144e-09 1.83e-06 0.00013587 0.0674 0.031072 1 0.71241 1 3.9528e-06 0.00215 0.00041955 0.197 1.6554e-05 0.00884 5.2861e-05 0.0268 5q gain 0 (0%) 483 NA NA NA NA 0.002863 1 0.42348 1 NA NA 1 1 0.06786 1 0.28634 1 0.051953 1 0.20331 1 6p gain 0 (0%) 454 0.42965 1 0.2431 1 1.5228e-16 1.02e-13 0.034667 1 0.66066 1 1 1 0.0066461 1 0.0074982 1 0.01207 1 0.030239 1 6q gain 0 (0%) 462 0.42965 1 0.2431 1 1.5822e-13 1.04e-10 0.33135 1 0.40106 1 1 1 0.0083914 1 0.0079272 1 0.16776 1 0.27806 1 7p gain 0 (0%) 449 1 1 0.86704 1 8.6204e-19 5.85e-16 0.011813 1 0.73304 1 0.21665 1 1 1 0.47476 1 0.24414 1 0.60937 1 7q gain 0 (0%) 449 0.94364 1 0.77558 1 2.3979e-19 1.63e-16 0.024395 1 0.88873 1 0.055165 1 0.38457 1 0.033117 1 0.44003 1 0.42504 1 8p gain 0 (0%) 406 0.3955 1 1 1 7.4822e-18 5.05e-15 0.91294 1 0.13349 1 1 1 0.47386 1 0.43448 1 0.37993 1 0.0022026 0.947 8q gain 0 (0%) 374 0.0046103 1 0.042441 1 1.6503e-21 1.13e-18 0.36766 1 0.0049518 1 1 1 0.0059062 1 0.00029937 0.143 0.0018009 0.778 3.2674e-05 0.017 9p gain 0 (0%) 478 NA NA NA NA 0.048355 1 0.078573 1 NA NA 1 1 0.82159 1 0.07871 1 0.06993 1 0.029363 1 9q gain 0 (0%) 488 NA NA NA NA 0.35164 1 0.36274 1 NA NA NA NA 0.78103 1 0.36079 1 0.38666 1 0.12665 1 10p gain 0 (0%) 405 0.0035467 1 0.063958 1 0.00069957 0.318 0.20411 1 0.28359 1 0.13573 1 0.015488 1 0.25464 1 0.06389 1 0.017848 1 10q gain 0 (0%) 413 0.0015046 0.657 0.030274 1 9.3428e-05 0.0468 0.17582 1 0.38785 1 0.25211 1 0.026202 1 0.25647 1 0.012807 1 0.0025667 1 11p gain 0 (0%) 484 0.17647 1 0.054256 1 0.0099016 1 0.037261 1 0.10904 1 1 1 0.15748 1 0.44673 1 0.13017 1 0.23835 1 11q gain 0 (0%) 484 NA NA NA NA 0.011078 1 0.46209 1 0.10904 1 0.29906 1 0.19408 1 0.39556 1 0.24246 1 0.36077 1 12p gain 0 (0%) 455 0.81541 1 0.82481 1 4.7807e-08 2.82e-05 0.0090941 1 0.9373 1 1 1 0.04547 1 0.090624 1 0.024128 1 0.016871 1 12q gain 0 (0%) 464 0.81541 1 0.82481 1 3.6845e-07 0.00021 0.12086 1 0.90119 1 1 1 0.081103 1 0.22715 1 0.12562 1 0.31102 1 13q gain 0 (0%) 472 NA NA NA NA 9.5474e-08 5.56e-05 0.0055648 1 0.73455 1 0.36663 1 7.1356e-05 0.036 0.00046225 0.216 3.4545e-05 0.0178 4.2316e-05 0.0217 14q gain 0 (0%) 472 1 1 1 1 2.159e-05 0.0114 0.22681 1 0.2387 1 0.29227 1 0.40121 1 0.073693 1 0.048591 1 0.028108 1 15q gain 0 (0%) 486 NA NA NA NA 0.0041566 1 0.84602 1 NA NA 1 1 0.828 1 0.69879 1 0.88416 1 1 1 16p gain 0 (0%) 480 NA NA NA NA 0.00079405 0.357 0.031322 1 0.24267 1 1 1 0.06786 1 0.07871 1 0.08308 1 0.33608 1 16q gain 0 (0%) 488 NA NA NA NA 0.046028 1 1 1 NA NA 1 1 NA NA NA NA 1 1 0.86072 1 17p gain 0 (0%) 485 NA NA NA NA 2.602e-05 0.0136 0.24392 1 NA NA 1 1 0.31635 1 0.31542 1 0.070074 1 0.14496 1 17q gain 0 (0%) 479 NA NA NA NA 0.00072729 0.329 0.0035743 1 0.053132 1 1 1 0.027619 1 0.28381 1 0.0088727 1 0.011039 1 18p gain 0 (0%) 455 0.059073 1 0.1325 1 4.9415e-14 3.26e-11 6.6366e-05 0.0336 0.092984 1 0.42867 1 3.3389e-05 0.0173 7.2822e-07 0.000411 4.2564e-09 2.58e-06 6.4699e-09 3.9e-06 18q gain 0 (0%) 472 0.17647 1 0.054256 1 8.2613e-06 0.00445 0.0056176 1 NA NA 1 1 0.017254 1 0.0056462 1 0.00011073 0.0553 0.0004364 0.205 19p gain 0 (0%) 461 0.059073 1 0.015111 1 2.4038e-13 1.57e-10 0.0042875 1 0.52818 1 0.15057 1 4.7344e-06 0.00257 1.8393e-05 0.00979 9.1802e-07 0.000515 3.2364e-05 0.0168 19q gain 0 (0%) 464 NA NA NA NA 4.2813e-13 2.8e-10 0.0014709 0.644 0.084981 1 1 1 4.7344e-06 0.00257 1.5912e-06 0.000886 8.1173e-07 0.000456 2.169e-05 0.0114 20p gain 0 (0%) 427 0.17647 1 0.054256 1 2.2767e-18 1.54e-15 3.4709e-05 0.0179 0.29078 1 1 1 9.0371e-05 0.0454 0.011949 1 1.8405e-08 1.1e-05 4.4015e-07 0.00025 20q gain 0 (0%) 414 0.059073 1 0.015111 1 3.6242e-24 2.49e-21 8.601e-08 5.03e-05 0.19154 1 0.58017 1 1.7451e-06 0.000967 0.00062065 0.285 1.6343e-11 1.05e-08 3.6456e-10 2.27e-07 21q gain 0 (0%) 467 NA NA NA NA 1.1349e-08 6.82e-06 0.079381 1 0.2367 1 0.55767 1 0.00020408 0.0992 0.0094958 1 0.00041371 0.195 0.00037514 0.178 22q gain 0 (0%) 483 NA NA NA NA 0.0047256 1 0.00053691 0.249 NA NA 0.37629 1 0.11476 1 0.36079 1 0.0013204 0.581 0.0025879 1 Xq gain 0 (0%) 480 NA NA NA NA 0.00025705 0.123 0.32236 1 NA NA 0.37629 1 0.15748 1 0.44673 1 0.0087137 1 0.088767 1 1p loss 0 (0%) 479 NA NA NA NA 1.8216e-08 1.09e-05 0.00095455 0.427 NA NA 1 1 0.040252 1 0.088379 1 0.051655 1 0.0031776 1 1q loss 0 (0%) 488 NA NA NA NA 0.03655 1 0.057423 1 NA NA NA NA 0.11476 1 0.36079 1 0.099056 1 0.12665 1 2p loss 0 (0%) 486 NA NA NA NA 0.019044 1 0.51798 1 NA NA 0.14038 1 0.15748 1 0.087811 1 0.77312 1 0.19887 1 2q loss 0 (0%) 484 NA NA NA NA 0.0063665 1 0.19926 1 NA NA 0.14038 1 0.15748 1 0.087811 1 0.49273 1 0.19166 1 3p loss 0 (0%) 461 NA NA NA NA 1.3351e-14 8.84e-12 0.00014128 0.0699 0.00052575 0.244 0.027968 1 1.7855e-07 0.000103 8.6312e-08 5.04e-05 4.2079e-05 0.0216 2.3725e-05 0.0124 3q loss 0 (0%) 480 NA NA NA NA 4.3108e-05 0.022 0.05836 1 0.024047 1 0.55767 1 0.0047873 1 0.0027388 1 0.034692 1 0.073932 1 4p loss 0 (0%) 426 0.07289 1 0.013284 1 4.7865e-25 3.3e-22 7.079e-11 4.47e-08 0.033892 1 0.39315 1 2.45e-09 1.49e-06 1.2904e-07 7.48e-05 1.8764e-13 1.23e-10 4.4442e-12 2.88e-09 4q loss 0 (0%) 428 0.68266 1 0.37121 1 1.3603e-26 9.39e-24 2.656e-11 1.69e-08 0.13113 1 0.77642 1 2.643e-08 1.57e-05 2.4453e-08 1.45e-05 1.0419e-10 6.55e-08 1.3905e-10 8.69e-08 5p loss 0 (0%) 465 0.35228 1 0.1325 1 1.1633e-10 7.29e-08 0.00033435 0.159 0.16154 1 0.18109 1 0.0007823 0.353 0.00067185 0.307 0.00021616 0.105 0.0028051 1 5q loss 0 (0%) 447 0.07289 1 0.013284 1 1.1786e-18 7.99e-16 7.2617e-09 4.37e-06 0.04811 1 0.15296 1 6.2834e-08 3.69e-05 2.9609e-08 1.76e-05 2.8298e-09 1.72e-06 7.5812e-08 4.44e-05 6p loss 0 (0%) 482 0.68266 1 0.37121 1 0.00086192 0.386 0.096217 1 0.85846 1 0.55767 1 0.19389 1 0.24853 1 0.17221 1 0.01708 1 6q loss 0 (0%) 480 0.68266 1 0.37121 1 0.00023581 0.114 0.035408 1 0.85846 1 0.55767 1 0.015969 1 0.03837 1 0.13325 1 0.010299 1 7p loss 0 (0%) 463 0.17647 1 0.054256 1 9.8778e-10 6.09e-07 0.006562 1 0.15846 1 0.20053 1 0.00016195 0.0798 2.2672e-05 0.0119 0.00078279 0.353 0.003384 1 7q loss 0 (0%) 465 NA NA NA NA 4.9115e-14 3.24e-11 0.00018012 0.0884 0.19732 1 0.012085 1 1.3201e-07 7.64e-05 1.5912e-06 0.000886 1.7667e-05 0.00942 1.2509e-05 0.0067 8p loss 0 (0%) 439 0.019107 1 0.0040321 1 4.0085e-24 2.75e-21 1.0774e-11 6.92e-09 0.165 1 0.18109 1 4.8415e-12 3.13e-09 6.9006e-10 4.28e-07 4.0129e-15 2.67e-12 7.1738e-17 4.82e-14 8q loss 0 (0%) 480 NA NA NA NA 2.228e-05 0.0117 0.00095455 0.427 NA NA 1 1 0.039552 1 0.15399 1 0.00030152 0.144 0.00044305 0.207 9p loss 0 (0%) 416 0.022668 1 0.0037915 1 2.631e-29 1.82e-26 2.341e-06 0.00129 0.011722 1 0.24436 1 2.1227e-12 1.38e-09 7.6036e-15 5.04e-12 1.3706e-09 8.42e-07 1.189e-08 7.13e-06 9q loss 0 (0%) 399 0.0015041 0.657 0.0002482 0.119 1.5312e-37 1.07e-34 5.863e-07 0.000332 0.0060055 1 0.37819 1 2.5645e-13 1.68e-10 2.816e-16 1.88e-13 2.0918e-12 1.36e-09 3.8291e-10 2.38e-07 10p loss 0 (0%) 469 0.17647 1 0.054256 1 3.9966e-11 2.54e-08 0.00033435 0.159 0.47447 1 0.63255 1 0.0004688 0.218 0.0015999 0.696 1.2481e-05 0.0067 0.0010795 0.477 10q loss 0 (0%) 468 NA NA NA NA 2.9446e-10 1.83e-07 0.0001924 0.0939 0.45123 1 1 1 0.0004688 0.218 0.0056992 1 0.00021424 0.104 0.0019512 0.841 11p loss 0 (0%) 439 NA NA NA NA 1.4445e-21 9.89e-19 7.4418e-07 0.000419 0.18182 1 0.75005 1 4.4598e-08 2.63e-05 2.5957e-07 0.000149 1.9861e-08 1.18e-05 1.9857e-06 0.0011 11q loss 0 (0%) 447 NA NA NA NA 1.1505e-15 7.67e-13 7.5322e-05 0.0379 0.92479 1 0.71272 1 0.00039705 0.187 8.0744e-06 0.00436 2.5435e-06 0.0014 0.00018374 0.09 12p loss 0 (0%) 467 NA NA NA NA 3.8618e-11 2.46e-08 0.0001924 0.0939 0.057656 1 1 1 3.6189e-05 0.0186 0.0056992 1 9.52e-08 5.55e-05 4.3437e-06 0.00236 12q loss 0 (0%) 474 NA NA NA NA 1.23e-09 7.56e-07 0.00010017 0.0501 0.30993 1 0.42867 1 0.0010551 0.467 0.006701 1 1.2507e-06 0.000698 1.6661e-06 0.000925 13q loss 0 (0%) 432 0.68266 1 0.37121 1 2.4269e-18 1.64e-15 0.00011254 0.056 0.16118 1 0.39315 1 0.00039515 0.187 3.8892e-06 0.00212 7.271e-05 0.0366 0.00018788 0.0919 14q loss 0 (0%) 450 0.019107 1 0.0040321 1 8.9369e-17 6e-14 1.4782e-09 9.03e-07 0.084745 1 0.0051992 1 3.3753e-08 2e-05 1.9461e-07 0.000112 3.3396e-09 2.02e-06 9.8161e-12 6.33e-09 15q loss 0 (0%) 411 0.0067724 1 0.0010266 0.456 4.6791e-35 3.25e-32 1.6072e-13 1.06e-10 0.00259 1 0.26661 1 7.9229e-10 4.9e-07 1.0686e-10 6.71e-08 5.2164e-15 3.46e-12 1.0728e-16 7.19e-14 16p loss 0 (0%) 423 0.019107 1 0.0040321 1 2.8194e-31 1.95e-28 2.7681e-09 1.69e-06 0.19252 1 0.79627 1 7.5166e-10 4.65e-07 1.4726e-09 9.03e-07 1.4723e-09 9.03e-07 1.359e-10 8.51e-08 16q loss 0 (0%) 382 0.0068587 1 0.0017313 0.751 5.935e-40 4.14e-37 2.8603e-11 1.82e-08 0.23685 1 1 1 1.006e-11 6.48e-09 2.3407e-10 1.46e-07 1.068e-11 6.87e-09 1.9012e-11 1.22e-08 17p loss 0 (0%) 387 0.0068587 1 0.0017313 0.751 8.6624e-53 6.05e-50 8.1447e-13 5.31e-10 0.00057115 0.263 0.66522 1 1.6027e-20 1.09e-17 2.1472e-21 1.47e-18 4.8685e-17 3.28e-14 2.9242e-15 1.95e-12 17q loss 0 (0%) 424 0.019107 1 0.0040321 1 1.4783e-29 1.02e-26 3.4055e-05 0.0176 0.092362 1 0.61178 1 4.279e-09 2.58e-06 1.9474e-11 1.24e-08 2.7135e-07 0.000156 5.5038e-07 0.000313 18p loss 0 (0%) 456 NA NA NA NA 3.1519e-12 2.05e-09 2.091e-05 0.0111 0.32575 1 0.74551 1 0.00065956 0.302 0.00017153 0.0844 0.0047178 1 0.00059413 0.273 18q loss 0 (0%) 443 NA NA NA NA 9.7475e-18 6.57e-15 1.978e-06 0.00109 0.72497 1 1 1 3.8676e-06 0.00212 5.6503e-07 0.00032 3.0351e-06 0.00167 2.5908e-07 0.000149 19p loss 0 (0%) 458 NA NA NA NA 4.6331e-12 3e-09 1.066e-07 6.19e-05 0.33053 1 1 1 1.8398e-05 0.00979 7.8364e-06 0.00424 1.0147e-05 0.00546 6.4116e-07 0.000362 19q loss 0 (0%) 464 NA NA NA NA 1.787e-08 1.07e-05 4.6494e-05 0.0237 0.73417 1 0.71272 1 0.00071886 0.326 0.002828 1 0.00067643 0.308 1.4632e-05 0.00783 20p loss 0 (0%) 477 NA NA NA NA 0.00012225 0.0608 0.10685 1 0.24267 1 0.63255 1 0.03678 1 0.046533 1 0.0063452 1 0.070239 1 20q loss 0 (0%) 485 NA NA NA NA 0.010576 1 0.054039 1 NA NA 0.52818 1 0.39137 1 0.47424 1 0.16373 1 0.078002 1 21q loss 0 (0%) 460 0.059073 1 0.015111 1 6.4739e-08 3.8e-05 0.0025241 1 0.09504 1 0.75005 1 0.00014817 0.0732 0.0013625 0.598 0.00096974 0.432 4.4287e-05 0.0226 22q loss 0 (0%) 405 0.019107 1 0.0040321 1 1.4075e-36 9.78e-34 4.2349e-08 2.5e-05 0.072103 1 1 1 4.876e-11 3.09e-08 3.2854e-14 2.17e-11 9.6434e-11 6.08e-08 1.0131e-09 6.24e-07 Xq loss 0 (0%) 474 NA NA NA NA 2.9675e-07 0.00017 0.00056938 0.263 0.61718 1 0.63255 1 0.015969 1 0.006701 1 0.00023331 0.113 2.2718e-05 0.0119