Molecular subtypes MRNA_CNMF MRNA_CHIERARCHICAL CN_CNMF METHLYATION_CNMF 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 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 1q gain 8 (7%) 109 0.4375 1 NA NA 0.20656 1 0.00017187 0.0658 0.0023236 0.836 0.0082681 1 0.43276 1 0.14501 1 2p gain 11 (9%) 106 0.55 1 0.75 1 0.0030227 1 0.14936 1 0.58457 1 0.33789 1 0.86852 1 0.066903 1 2q gain 13 (11%) 104 0.55 1 0.75 1 0.0017846 0.65 0.28607 1 0.32901 1 0.20533 1 0.85617 1 0.17405 1 3p gain 28 (24%) 89 0.30245 1 0.055944 1 2.1043e-14 8.44e-12 0.029744 1 0.00026832 0.101 3.6444e-07 0.000144 0.037482 1 1.2176e-05 0.00477 3q gain 32 (27%) 85 0.30245 1 0.055944 1 3.7871e-10 1.5e-07 0.024544 1 3.6453e-05 0.0141 6.94e-06 0.00273 0.0091092 1 0.00024562 0.0928 4p gain 4 (3%) 113 0.175 1 NA NA 0.43783 1 NA NA 0.45704 1 1 1 0.68274 1 0.88102 1 4q gain 3 (3%) 114 0.4375 1 NA NA 0.77719 1 NA NA 0.64474 1 0.60211 1 0.76737 1 0.61752 1 5p gain 11 (9%) 106 0.175 1 NA NA 0.22956 1 0.18006 1 0.15575 1 0.80008 1 0.69689 1 0.73064 1 5q gain 11 (9%) 106 0.175 1 NA NA 0.22956 1 0.18006 1 0.57862 1 0.80008 1 0.91915 1 0.30126 1 6p gain 4 (3%) 113 0.4375 1 NA NA 0.43783 1 0.45581 1 0.11386 1 0.6766 1 0.16515 1 0.37418 1 6q gain 3 (3%) 114 0.4375 1 NA NA 0.11302 1 NA NA 0.40969 1 1 1 0.2315 1 0.39696 1 7p gain 64 (55%) 53 0.63287 1 0.43182 1 3.4663e-10 1.38e-07 0.00033398 0.125 5.6531e-05 0.0217 2.0139e-05 0.00785 0.011017 1 0.0089565 1 7q gain 65 (56%) 52 0.63287 1 0.43182 1 7.1753e-11 2.86e-08 0.0010958 0.405 0.00018097 0.0691 3.7395e-05 0.0144 0.0041915 1 0.011319 1 8p gain 7 (6%) 110 1 1 NA NA 0.71951 1 0.077605 1 0.73212 1 0.2325 1 0.61673 1 0.85363 1 8q gain 9 (8%) 108 1 1 NA NA 0.37061 1 0.0234 1 0.24306 1 0.06828 1 0.18729 1 0.76683 1 10p gain 4 (3%) 113 1 1 NA NA 0.17348 1 NA NA 0.64474 1 0.60211 1 0.18898 1 0.88102 1 10q gain 3 (3%) 114 1 1 NA NA 0.30988 1 NA NA NA NA NA NA 0.45351 1 0.34091 1 12p gain 36 (31%) 81 1 1 0.090909 1 0.034478 1 0.27606 1 0.16103 1 0.064767 1 0.14633 1 0.096765 1 12q gain 36 (31%) 81 1 1 0.090909 1 0.034478 1 0.27606 1 0.16103 1 0.064767 1 0.14633 1 0.096765 1 13q gain 14 (12%) 103 1 1 NA NA 0.045427 1 0.45457 1 0.32428 1 0.044459 1 0.74724 1 0.085169 1 16p gain 54 (46%) 63 0.12622 1 0.06993 1 0.00020466 0.0778 0.35203 1 0.0087431 1 0.00018232 0.0695 0.0026753 0.96 0.00070573 0.264 16q gain 51 (44%) 66 0.30245 1 0.055944 1 2.2506e-05 0.00875 0.1172 1 0.0041868 1 1.4611e-05 0.00571 0.001788 0.65 0.00022323 0.0846 17p gain 61 (52%) 56 0.63287 1 0.43182 1 1.0154e-14 4.08e-12 5.3322e-05 0.0205 3.4862e-05 0.0135 2.2101e-06 0.000871 0.12863 1 0.0019703 0.713 17q gain 71 (61%) 46 0.30769 1 0.80769 1 1.3202e-09 5.23e-07 0.014299 1 0.014371 1 0.0009262 0.344 0.36247 1 0.15623 1 18p gain 6 (5%) 111 0.55 1 0.14107 1 0.04888 1 0.32667 1 0.86321 1 1 1 0.84473 1 0.87666 1 18q gain 4 (3%) 113 0.4375 1 NA NA 0.0020868 0.753 0.32667 1 0.76956 1 0.43158 1 0.91039 1 0.33092 1 20p gain 37 (32%) 80 0.12622 1 0.16171 1 0.0029396 1 0.10581 1 0.00072212 0.269 0.015179 1 0.30486 1 0.1252 1 20q gain 38 (32%) 79 0.31469 1 0.11888 1 0.005945 1 0.29307 1 0.00081338 0.303 0.038136 1 0.1792 1 0.37105 1 21q gain 4 (3%) 113 0.4375 1 NA NA 0.3168 1 NA NA NA NA NA NA 0.10965 1 0.049206 1 Xq gain 4 (3%) 113 1 1 NA NA 0.11265 1 0.45581 1 0.45704 1 1 1 0.56989 1 0.88102 1 1p loss 12 (10%) 105 1 1 NA NA 0.11857 1 1 1 0.61111 1 0.58893 1 0.011426 1 0.087304 1 1q loss 7 (6%) 110 1 1 NA NA 0.099817 1 0.19809 1 0.10312 1 0.43158 1 0.035924 1 0.012377 1 3p loss 7 (6%) 110 0.4375 1 NA NA 0.0033471 1 0.0027356 0.979 0.05796 1 0.014854 1 0.059111 1 0.22061 1 3q loss 3 (3%) 114 NA NA NA NA 0.024757 1 0.040143 1 0.028791 1 0.07623 1 0.52056 1 0.72027 1 4p loss 10 (9%) 107 1 1 NA NA 0.082567 1 0.0014106 0.518 0.0039859 1 0.086648 1 0.85332 1 0.90019 1 4q loss 10 (9%) 107 1 1 NA NA 0.011224 1 0.0014106 0.518 0.099931 1 0.06828 1 0.85332 1 0.69791 1 5p loss 5 (4%) 112 NA NA NA NA 0.28648 1 0.43362 1 0.11386 1 0.062599 1 0.23631 1 0.91577 1 5q loss 5 (4%) 112 NA NA NA NA 0.41106 1 0.43362 1 0.40969 1 0.21053 1 0.23631 1 0.91577 1 6p loss 9 (8%) 108 1 1 NA NA 0.10685 1 0.56808 1 0.4679 1 1 1 0.33091 1 0.53877 1 6q loss 11 (9%) 106 1 1 NA NA 0.082178 1 0.20504 1 0.37371 1 0.5581 1 0.7825 1 0.69318 1 8p loss 3 (3%) 114 1 1 NA NA 0.14273 1 NA NA NA NA NA NA 1 1 0.61752 1 9p loss 14 (12%) 103 1 1 0.75 1 0.012323 1 0.0013458 0.495 0.0078208 1 0.067805 1 0.23186 1 0.58728 1 9q loss 14 (12%) 103 1 1 NA NA 0.053111 1 0.001255 0.463 0.025579 1 0.13122 1 0.36974 1 0.2539 1 10p loss 6 (5%) 111 1 1 NA NA 0.00029486 0.111 0.19892 1 0.26949 1 0.17956 1 0.26483 1 0.67481 1 10q loss 7 (6%) 110 0.4375 1 NA NA 0.0033471 1 0.086764 1 0.26949 1 0.087115 1 0.61673 1 0.22061 1 11p loss 8 (7%) 109 1 1 NA NA 0.066393 1 0.043416 1 0.26949 1 0.14512 1 1 1 0.44693 1 11q loss 10 (9%) 107 NA NA NA NA 0.036152 1 0.0065237 1 0.29584 1 0.056335 1 0.96768 1 0.90019 1 13q loss 10 (9%) 107 1 1 NA NA 0.17832 1 0.0014106 0.518 0.09099 1 0.40301 1 0.35517 1 0.23386 1 14q loss 20 (17%) 97 1 1 0.38462 1 2.8337e-11 1.13e-08 0.38963 1 0.13535 1 0.097727 1 0.45719 1 0.96763 1 15q loss 10 (9%) 107 1 1 NA NA 0.036152 1 0.32017 1 0.57862 1 0.48748 1 0.57334 1 0.81565 1 16q loss 3 (3%) 114 NA NA NA NA 0.14273 1 0.040143 1 NA NA NA NA 0.86195 1 0.2861 1 17p loss 5 (4%) 112 0.4375 1 NA NA 0.41106 1 0.010573 1 0.028791 1 0.07623 1 0.21863 1 0.25082 1 18p loss 17 (15%) 100 1 1 NA NA 0.90465 1 0.067464 1 0.077193 1 0.011421 1 0.15845 1 0.44549 1 18q loss 18 (15%) 99 1 1 NA NA 0.91038 1 0.03176 1 0.039207 1 0.0036251 1 0.32182 1 0.3728 1 19p loss 4 (3%) 113 NA NA NA NA 0.09543 1 1 1 NA NA NA NA 0.7457 1 0.33092 1 19q loss 3 (3%) 114 NA NA NA NA 0.14273 1 0.60262 1 NA NA NA NA 0.27872 1 0.61752 1 21q loss 12 (10%) 105 0.55 1 0.4125 1 0.50033 1 0.35469 1 0.24646 1 0.72792 1 0.21884 1 0.28387 1 22q loss 21 (18%) 96 1 1 NA NA 0.0091565 1 0.097063 1 0.67259 1 0.047716 1 0.18587 1 0.43329 1 Xq loss 3 (3%) 114 1 1 NA NA 0.30988 1 NA NA NA NA NA NA 0.76737 1 0.10025 1