Clinical Features MRNA_CNMF MRNA_CHIERARCHICAL MIR_CNMF MIR_CHIERARCHICAL CN_CNMF METHLYATION_CNMF RPPA_CNMF RPPA_CHIERARCHICAL MRNASEQ_CNMF MRNASEQ_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 Fisher's exact test_P Fisher's exact test_Q Fisher's exact test_P Fisher's exact test_Q amp_1p36.21 92 (16%) 485 0.58866 1 0.42354 1 0.40247 1 0.11433 1 9.9999e-06 0.0071 0.56981 1 0.02667 1 0.095199 1 0.01213 1 0.02003 1 amp_1q32.1 160 (28%) 417 0.81881 1 0.061409 1 0.33402 1 0.14795 1 9.9999e-06 0.0071 0.3065 1 0.91359 1 0.66848 1 0.55127 1 0.089869 1 amp_1q44 99 (17%) 478 0.1437 1 0.61996 1 0.60846 1 0.30782 1 9.9999e-06 0.0071 0.60039 1 0.31817 1 0.082949 1 0.96208 1 0.55099 1 amp_2p24.3 49 (8%) 528 0.099389 1 0.01731 1 0.43193 1 0.97922 1 0.00123 0.694 0.01591 1 0.43312 1 0.36549 1 0.88526 1 0.62521 1 amp_3q26.33 111 (19%) 466 0.0075999 1 0.21345 1 0.44897 1 0.056379 1 9.9999e-06 0.0071 0.066339 1 0.087059 1 0.66581 1 0.27729 1 0.69924 1 amp_4p16.3 48 (8%) 529 0.31008 1 0.72635 1 0.85787 1 0.083079 1 0.18377 1 0.55849 1 0.70546 1 0.47604 1 1 1 1 1 amp_4q12 108 (19%) 469 0.00078999 0.451 0.00312 1 0.53721 1 0.47247 1 3e-05 0.0185 0.0099799 1 0.47128 1 0.60299 1 0.15784 1 0.41775 1 amp_7p11.2 507 (88%) 70 9.9999e-06 0.0071 9.9999e-06 0.0071 9.9999e-06 0.0071 9.9999e-06 0.0071 9.9999e-06 0.0071 9.9999e-06 0.0071 9.9999e-06 0.0071 6.9999e-05 0.0421 9.9999e-06 0.0071 9.9999e-06 0.0071 amp_7q11.21 464 (80%) 113 2e-05 0.0125 9.9999e-06 0.0071 5e-05 0.0303 3e-05 0.0185 9.9999e-06 0.0071 9.9999e-06 0.0071 0.00478 1 0.0024 1 0.00429 1 5.9999e-05 0.0362 amp_7q21.2 480 (83%) 97 3e-05 0.0185 9.9999e-06 0.0071 0.04999 1 0.00012 0.0708 9.9999e-06 0.0071 0.00011 0.065 0.01832 1 0.04357 1 0.061389 1 0.00261 1 amp_7q31.2 473 (82%) 104 0.00192 1 9.9999e-06 0.0071 0.0104 1 0.0059299 1 2e-05 0.0125 0.01041 1 0.11048 1 0.02563 1 0.40872 1 0.0099799 1 amp_8q24.21 70 (12%) 507 9.9999e-06 0.0071 2e-05 0.0125 0.02557 1 0.28891 1 9.9999e-06 0.0071 8.9999e-05 0.0537 0.33361 1 0.29208 1 0.087459 1 0.27004 1 amp_11p13 31 (5%) 546 0.78628 1 0.3514 1 0.5521 1 0.24727 1 0.34918 1 0.90388 1 0.71157 1 0.34029 1 1 1 0.8879 1 amp_12p13.32 84 (15%) 493 0.66571 1 0.38424 1 0.34227 1 0.42894 1 0.00014 0.0822 0.46936 1 0.39148 1 0.37 1 0.31664 1 0.55026 1 amp_12q14.1 134 (23%) 443 0.066259 1 0.14767 1 0.096709 1 0.088449 1 9.9999e-06 0.0071 0.48164 1 0.092809 1 0.24765 1 0.04309 1 0.14016 1 amp_12q15 93 (16%) 484 0.72856 1 0.31703 1 0.70615 1 0.27764 1 9.9999e-06 0.0071 0.49137 1 0.29512 1 0.30106 1 0.31524 1 0.89895 1 amp_13q34 32 (6%) 545 0.26091 1 0.19947 1 0.02881 1 0.48052 1 0.058229 1 0.23616 1 0.02104 1 0.23674 1 0.48978 1 0.80182 1 amp_13q34 30 (5%) 547 0.1397 1 0.20945 1 0.2156 1 0.78647 1 0.061929 1 0.48812 1 0.053429 1 0.30051 1 0.36563 1 0.7899 1 amp_14q32.33 36 (6%) 541 0.18871 1 0.65808 1 0.090259 1 0.92 1 0.2537 1 0.54172 1 0.02518 1 0.33965 1 0.0374 1 0.068149 1 amp_17p13.2 51 (9%) 526 0.00062999 0.362 0.01341 1 0.04806 1 0.11169 1 0.00206 1 0.01188 1 0.12583 1 0.51278 1 0.40499 1 0.56907 1 amp_17q25.1 84 (15%) 493 0.0133 1 0.25527 1 0.28307 1 0.72823 1 9.9999e-06 0.0071 0.17231 1 0.13609 1 0.18856 1 0.86527 1 0.69565 1 amp_19p13.3 244 (42%) 333 9.9999e-06 0.0071 9.9999e-06 0.0071 0.03772 1 0.00148 0.826 9.9999e-06 0.0071 9.9999e-06 0.0071 0.0089999 1 8.9999e-05 0.0537 0.82065 1 0.96935 1 amp_19p13.2 249 (43%) 328 9.9999e-06 0.0071 9.9999e-06 0.0071 0.14748 1 0.00116 0.658 9.9999e-06 0.0071 9.9999e-06 0.0071 0.01268 1 7.9999e-05 0.0479 0.16602 1 0.8081 1 amp_19q12 216 (37%) 361 9.9999e-06 0.0071 2e-05 0.0125 0.28149 1 0.00492 1 9.9999e-06 0.0071 9.9999e-06 0.0071 0.0091699 1 0.00056999 0.329 0.063519 1 0.17382 1 amp_21q21.1 70 (12%) 507 0.0052399 1 0.060849 1 0.01796 1 0.0076099 1 7.9999e-05 0.0479 0.01817 1 0.66931 1 0.083649 1 0.096969 1 0.40707 1 del_1p36.32 100 (17%) 477 0.91978 1 0.71147 1 0.58577 1 0.17364 1 0.50911 1 0.18234 1 0.60135 1 0.30867 1 0.25007 1 0.57787 1 del_1p36.23 136 (24%) 441 0.068799 1 0.18354 1 0.56958 1 0.55326 1 0.00024 0.14 0.55105 1 0.2787 1 0.29497 1 0.01574 1 0.069329 1 del_1p32.3 61 (11%) 516 0.2431 1 0.36475 1 0.83057 1 0.15978 1 0.49057 1 0.84017 1 0.70632 1 0.47468 1 0.80294 1 0.1055 1 del_1p22.1 48 (8%) 529 0.97646 1 0.5521 1 0.81229 1 0.0051399 1 0.14117 1 0.088899 1 0.88808 1 0.72117 1 1 1 0.3214 1 del_1q42.11 51 (9%) 526 0.21952 1 0.82296 1 0.51305 1 0.28244 1 0.60633 1 0.5569 1 0.13948 1 0.01642 1 0.68424 1 0.1931 1 del_1q44 35 (6%) 542 0.81456 1 0.47255 1 0.73154 1 0.24669 1 0.21727 1 1 1 0.66275 1 0.44001 1 0.54019 1 0.32061 1 del_2q22.1 47 (8%) 530 0.0056999 1 0.02991 1 0.38888 1 0.55042 1 9.9999e-06 0.0071 0.45328 1 0.4782 1 0.33875 1 0.18081 1 0.43157 1 del_2q37.1 55 (10%) 522 0.10233 1 0.0055699 1 0.31071 1 0.82481 1 0.01943 1 0.22157 1 0.78243 1 0.27019 1 0.18448 1 0.052619 1 del_3p21.1 53 (9%) 524 0.24359 1 0.13354 1 0.67484 1 0.48354 1 6.9999e-05 0.0421 0.04687 1 0.13558 1 0.91377 1 0.45938 1 0.10729 1 del_3q13.31 56 (10%) 521 0.57542 1 0.34558 1 0.60751 1 0.51136 1 3e-05 0.0185 0.02476 1 0.9751 1 0.20324 1 1 1 0.17667 1 del_3q22.1 58 (10%) 519 0.79319 1 0.62763 1 0.95627 1 1 1 4e-04 0.232 0.083019 1 0.96226 1 0.31935 1 1 1 0.21668 1 del_3q29 65 (11%) 512 0.089619 1 0.18725 1 0.53715 1 0.87577 1 0.04502 1 0.32807 1 0.45257 1 0.059529 1 0.95434 1 0.79479 1 del_4p16.3 78 (14%) 499 0.04774 1 0.00478 1 0.32084 1 0.24886 1 0.00195 1 8.9999e-05 0.0537 0.83449 1 0.45338 1 0.8723 1 0.94545 1 del_4q34.3 93 (16%) 484 0.0051299 1 0.00033 0.191 0.075139 1 0.099329 1 9.9999e-06 0.0071 0.0072299 1 0.097469 1 0.91851 1 0.12364 1 0.13612 1 del_5q34 70 (12%) 507 4e-05 0.0244 9.9999e-06 0.0071 6.9999e-05 0.0421 0.0052099 1 0.0069799 1 2e-05 0.0125 0.69763 1 0.6959 1 0.25645 1 0.1299 1 del_6q22.31 158 (27%) 419 0.6325 1 0.99065 1 0.29064 1 0.28677 1 9.9999e-06 0.0071 0.2518 1 0.34529 1 0.18887 1 0.79641 1 0.11065 1 del_6q26 179 (31%) 398 0.7408 1 0.75475 1 0.47853 1 0.5463 1 0.00136 0.762 0.01679 1 0.03469 1 0.34097 1 0.7624 1 0.01825 1 del_8p23.2 66 (11%) 511 0.37539 1 0.24692 1 0.17867 1 0.27557 1 0.4889 1 0.32537 1 0.94539 1 0.90192 1 0.72123 1 0.43658 1 del_9p21.3 421 (73%) 156 9.9999e-06 0.0071 9.9999e-06 0.0071 0.69567 1 0.03642 1 9.9999e-06 0.0071 0.13996 1 0.14002 1 0.01631 1 0.02738 1 0.0075999 1 del_9q34.2 79 (14%) 498 0.21305 1 0.10529 1 0.51943 1 0.23058 1 0.39483 1 0.84536 1 0.22846 1 0.22482 1 0.44166 1 0.30158 1 del_10p15.3 470 (81%) 107 9.9999e-06 0.0071 9.9999e-06 0.0071 0.0083899 1 0.00371 1 9.9999e-06 0.0071 9.9999e-06 0.0071 0.0050799 1 0.00202 1 0.01466 1 2e-04 0.117 del_10p13 471 (82%) 106 9.9999e-06 0.0071 9.9999e-06 0.0071 0.00248 1 0.00134 0.752 9.9999e-06 0.0071 9.9999e-06 0.0071 0.00018 0.105 9.9999e-05 0.0592 0.088049 1 0.00275 1 del_10p11.23 476 (82%) 101 9.9999e-06 0.0071 9.9999e-06 0.0071 5e-05 0.0303 3e-05 0.0185 9.9999e-06 0.0071 9.9999e-06 0.0071 0.00095999 0.547 0.00344 1 0.04399 1 0.00127 0.715 del_10q23.31 514 (89%) 63 9.9999e-06 0.0071 9.9999e-06 0.0071 0.01179 1 0.0032 1 9.9999e-06 0.0071 0.00052999 0.306 0.0097999 1 0.068269 1 0.36592 1 0.04214 1 del_10q26.3 515 (89%) 62 9.9999e-06 0.0071 9.9999e-06 0.0071 0.04221 1 0.00148 0.826 9.9999e-06 0.0071 3e-05 0.0185 0.1186 1 0.04484 1 0.25068 1 0.03573 1 del_11p15.5 129 (22%) 448 9.9999e-06 0.0071 9.9999e-06 0.0071 0.16339 1 0.00136 0.762 9.9999e-06 0.0071 2e-05 0.0125 0.16864 1 0.04552 1 0.00279 1 0.00152 0.845 del_11p11.2 105 (18%) 472 9.9999e-06 0.0071 9.9999e-06 0.0071 0.50357 1 0.01851 1 9.9999e-06 0.0071 0.00251 1 0.93426 1 0.66084 1 0.093639 1 0.088349 1 del_11q14.1 96 (17%) 481 9.9999e-06 0.0071 0.00062999 0.362 0.87829 1 0.13855 1 9.9999e-06 0.0071 0.33108 1 0.74862 1 0.67565 1 0.12075 1 0.16158 1 del_12p13.1 72 (12%) 505 0.050359 1 0.01365 1 0.25329 1 0.23131 1 0.083879 1 0.15373 1 0.68245 1 0.55811 1 1 1 0.92943 1 del_12q12 77 (13%) 500 0.01349 1 0.00064999 0.372 0.26976 1 0.084029 1 8.9999e-05 0.0537 0.063179 1 0.096809 1 0.27122 1 1 1 0.66093 1 del_12q15 79 (14%) 498 0.00012 0.0708 0.0019 1 0.48499 1 0.42706 1 9.9999e-06 0.0071 0.24275 1 0.54969 1 0.71824 1 0.71378 1 0.39389 1 del_13q14.2 241 (42%) 336 9.9999e-06 0.0071 5e-05 0.0303 0.35178 1 0.14676 1 9.9999e-06 0.0071 0.00060999 0.351 0.85413 1 0.11505 1 0.078829 1 0.070009 1 del_13q22.1 230 (40%) 347 9.9999e-06 0.0071 0.00012 0.0708 0.50749 1 0.33811 1 9.9999e-06 0.0071 0.071669 1 0.60643 1 0.01439 1 0.52155 1 0.28459 1 del_14q13.1 178 (31%) 399 2e-05 0.0125 0.00024 0.14 0.61216 1 0.66286 1 9.9999e-06 0.0071 0.04362 1 0.62533 1 0.20546 1 0.44653 1 0.94319 1 del_14q24.2 173 (30%) 404 9.9999e-06 0.0071 9.9999e-06 0.0071 0.057009 1 0.15502 1 9.9999e-06 0.0071 0.0043 1 0.55238 1 0.058809 1 0.087079 1 0.93926 1 del_15q14 154 (27%) 423 3e-05 0.0185 9.9999e-06 0.0071 0.00121 0.684 5.9999e-05 0.0362 9.9999e-06 0.0071 0.0050199 1 0.057619 1 0.04795 1 0.00096999 0.552 0.01741 1 del_16p12.2 92 (16%) 485 0.24735 1 0.23153 1 0.39513 1 0.8716 1 0.17337 1 0.070249 1 0.44087 1 0.11448 1 0.4437 1 0.33212 1 del_16q23.1 101 (18%) 476 0.0148 1 0.49051 1 0.87487 1 0.53826 1 0.0126 1 0.85814 1 0.055469 1 0.0060199 1 0.87909 1 0.7844 1 del_17p13.2 88 (15%) 489 0.00283 1 0.02551 1 0.95151 1 0.94783 1 9.9999e-06 0.0071 0.074429 1 0.63291 1 0.41024 1 0.58724 1 0.81948 1 del_17p13.1 98 (17%) 479 2e-04 0.117 0.00194 1 0.62829 1 0.8974 1 9.9999e-06 0.0071 0.11015 1 0.64561 1 0.25877 1 0.64569 1 0.66352 1 del_17q11.2 72 (12%) 505 2e-05 0.0125 3e-05 0.0185 0.00257 1 0.01059 1 9.9999e-06 0.0071 0.00028 0.163 0.0060199 1 0.0087799 1 0.53639 1 0.56526 1 del_18q22.3 82 (14%) 495 0.12683 1 0.087479 1 0.78799 1 0.39074 1 8.9999e-05 0.0537 0.18959 1 0.01024 1 0.0079299 1 0.19651 1 0.27291 1 del_19q13.41 99 (17%) 478 0.004 1 4e-05 0.0244 0.076729 1 0.04417 1 0.0012 0.679 9.9999e-06 0.0071 0.052989 1 0.33411 1 0.03526 1 0.093539 1 del_21q21.1 56 (10%) 521 0.01127 1 0.00111 0.63 0.01574 1 0.20781 1 0.090679 1 0.00077999 0.446 0.00324 1 0.03283 1 0.66239 1 1 1 del_22q13.32 212 (37%) 365 0.71373 1 0.97159 1 0.04048 1 0.41108 1 2e-05 0.0125 0.26371 1 0.79419 1 0.32497 1 0.04911 1 0.085479 1 del_xp22.2 118 (20%) 459 0.0059999 1 0.0018 0.999 0.1132 1 0.17083 1 9.9999e-06 0.0071 0.00129 0.725 0.68465 1 0.24846 1 0.30489 1 0.66849 1