Clinical Features 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 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_1q31.1 145 (24%) 470 0.58471 1 0.54656 1 8.9999e-05 0.0628 0.52441 1 0.36551 1 0.12526 1 0.92598 1 0.3956 1 0.34268 1 0.25694 1 0.38865 1 0.29042 1 amp_2q33.1 141 (23%) 474 0.066979 1 0.00049 0.322 5.9999e-05 0.0425 0.00082999 0.533 0.24167 1 0.65519 1 8.9999e-05 0.0628 0.00013 0.0894 0.054459 1 0.04402 1 0.82785 1 0.79234 1 amp_5p12 119 (19%) 496 0.13175 1 0.02134 1 9.9999e-06 0.00876 0.69719 1 0.00155 0.973 0.13528 1 0.00183 1 3e-05 0.0217 0.9146 1 0.34321 1 0.098659 1 0.18327 1 amp_5q22.3 66 (11%) 549 0.60114 1 0.57512 1 0.00469 1 0.53401 1 0.46714 1 0.30999 1 0.49418 1 0.01127 1 0.62024 1 0.12565 1 0.88905 1 0.10884 1 amp_6p21.1 154 (25%) 461 0.03063 1 0.00015 0.103 9.9999e-06 0.00876 0.19812 1 0.58764 1 0.7317 1 0.067369 1 9.9999e-05 0.0693 0.18257 1 0.70556 1 0.068299 1 0.01548 1 amp_7p21.3 363 (59%) 252 0.00098999 0.633 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 0.02496 1 0.00248 1 9.9999e-06 0.00876 9.9999e-06 0.00876 0.0089899 1 0.16692 1 0.02452 1 0.099779 1 amp_8p11.23 211 (34%) 404 0.39378 1 0.20907 1 9.9999e-06 0.00876 0.36334 1 0.76905 1 0.98835 1 0.01767 1 0.00299 1 0.01282 1 0.082459 1 0.69335 1 0.42118 1 amp_8p11.21 256 (42%) 359 0.17424 1 0.10936 1 9.9999e-06 0.00876 0.22144 1 0.7252 1 0.35646 1 0.01811 1 0.0076899 1 0.079889 1 0.24797 1 0.65022 1 0.77777 1 amp_8q12.1 331 (54%) 284 0.14321 1 0.04313 1 9.9999e-06 0.00876 0.03036 1 0.02886 1 0.02286 1 0.00013 0.0894 3e-05 0.0217 0.11209 1 0.01497 1 0.01637 1 0.2342 1 amp_8q24.21 368 (60%) 247 0.23933 1 0.04923 1 9.9999e-06 0.00876 0.00050999 0.334 0.02556 1 0.04031 1 2e-05 0.0147 9.9999e-06 0.00876 0.14307 1 0.03369 1 0.051939 1 0.51372 1 amp_10q22.3 40 (7%) 575 1 1 0.86093 1 0.16864 1 0.64825 1 0.29626 1 0.6876 1 0.60649 1 0.62477 1 0.43481 1 0.97414 1 0.34798 1 0.48148 1 amp_11p15.5 139 (23%) 476 0.0013 0.823 0.00187 1 0.00014 0.0959 4e-04 0.265 0.03017 1 0.082279 1 9.9999e-06 0.00876 9.9999e-06 0.00876 0.42687 1 9.9999e-06 0.00876 0.88921 1 0.52976 1 amp_12p13.32 150 (24%) 465 0.64877 1 0.59426 1 0.03034 1 0.01506 1 0.47622 1 0.30394 1 0.72329 1 0.42761 1 0.71775 1 1 1 0.51326 1 0.17575 1 amp_13q12.13 401 (65%) 214 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 0.01685 1 0.01588 1 9.9999e-06 0.00876 9.9999e-06 0.00876 0.00026 0.175 0.48317 1 0.00172 1 0.050679 1 amp_13q12.2 396 (64%) 219 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 0.02014 1 0.04005 1 9.9999e-06 0.00876 9.9999e-06 0.00876 0.00052999 0.346 0.70892 1 0.00331 1 0.04518 1 amp_13q22.1 397 (65%) 218 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 0.083599 1 0.095989 1 9.9999e-06 0.00876 9.9999e-06 0.00876 0.00148 0.934 0.34311 1 0.03951 1 0.17885 1 amp_15q26.1 42 (7%) 573 0.71076 1 0.66299 1 0.092689 1 0.62918 1 0.23711 1 0.46736 1 0.45625 1 0.32725 1 0.71494 1 0.82816 1 0.65505 1 0.74242 1 amp_16p11.2 173 (28%) 442 0.0181 1 0.0021 1 9.9999e-06 0.00876 0.00038 0.253 0.0259 1 0.054279 1 3e-05 0.0217 2e-05 0.0147 0.44801 1 0.71783 1 0.03444 1 0.083409 1 amp_17q12 160 (26%) 455 0.02488 1 0.0073899 1 9.9999e-06 0.00876 0.00024 0.162 0.16039 1 0.087999 1 5e-05 0.0356 8.9999e-05 0.0628 0.0061399 1 0.0223 1 0.37887 1 0.3306 1 amp_17q24.1 144 (23%) 471 0.0090499 1 0.0078699 1 9.9999e-06 0.00876 0.00027 0.181 0.091429 1 0.02421 1 3e-05 0.0217 2e-04 0.136 0.00021 0.143 0.03198 1 0.46638 1 0.24705 1 amp_19p13.2 111 (18%) 504 0.10858 1 0.0078899 1 9.9999e-06 0.00876 0.01059 1 0.45927 1 0.6791 1 0.059009 1 0.00024 0.162 0.11643 1 0.66971 1 0.56427 1 0.078809 1 amp_19q12 139 (23%) 476 0.02886 1 0.00143 0.904 9.9999e-06 0.00876 0.21977 1 0.076249 1 0.43072 1 0.15789 1 0.0061099 1 0.18478 1 0.87727 1 0.46165 1 0.66839 1 amp_20p12.1 278 (45%) 337 0.01756 1 0.0079599 1 9.9999e-06 0.00876 0.16801 1 0.00116 0.738 0.11089 1 0.04176 1 9.9999e-06 0.00876 0.95363 1 0.66918 1 0.16425 1 0.16847 1 amp_20p11.21 363 (59%) 252 0.00012 0.0827 2e-05 0.0147 9.9999e-06 0.00876 2e-05 0.0147 0.0054699 1 0.13856 1 9.9999e-06 0.00876 9.9999e-06 0.00876 0.0194 1 0.0078899 1 0.12453 1 0.12758 1 amp_20q11.21 469 (76%) 146 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 0.0069899 1 0.01338 1 9.9999e-06 0.00876 9.9999e-06 0.00876 0.01726 1 0.00034 0.227 0.0031 1 0.01688 1 amp_20q12 471 (77%) 144 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 0.01072 1 0.0069699 1 9.9999e-06 0.00876 9.9999e-06 0.00876 0.0075699 1 7.9999e-05 0.056 0.00153 0.964 0.02883 1 amp_20q13.31 473 (77%) 142 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 0.01417 1 0.0054699 1 9.9999e-06 0.00876 9.9999e-06 0.00876 0.01584 1 0.00034 0.227 0.00441 1 0.03319 1 del_1p36.11 244 (40%) 371 0.00011 0.076 0.00053999 0.352 9.9999e-06 0.00876 3e-05 0.0217 0.1103 1 0.10405 1 9.9999e-06 0.00876 9.9999e-06 0.00876 0.39951 1 0.01004 1 0.22283 1 0.53736 1 del_1p33 176 (29%) 439 0.02041 1 0.079679 1 9.9999e-06 0.00876 0.00031 0.208 0.82909 1 0.55666 1 8.9999e-05 0.0628 0.00363 1 0.45276 1 0.10726 1 0.7773 1 0.57957 1 del_1p13.2 176 (29%) 439 0.2653 1 0.40104 1 9.9999e-06 0.00876 0.01107 1 0.76337 1 0.83135 1 0.00121 0.768 0.00026 0.175 0.51531 1 0.119 1 0.4936 1 0.22191 1 del_2p12 21 (3%) 594 1 1 0.96224 1 0.00031 0.208 0.0062999 1 0.36709 1 1 1 0.04933 1 0.02107 1 0.0064599 1 0.091389 1 0.12748 1 0.076089 1 del_2q22.1 35 (6%) 580 0.92696 1 0.61009 1 0.099589 1 0.60186 1 0.33982 1 0.35261 1 0.13972 1 0.089659 1 0.57828 1 0.11228 1 0.70606 1 0.6807 1 del_3p26.3 93 (15%) 522 0.36091 1 0.49274 1 0.14157 1 0.8886 1 0.64804 1 0.97853 1 0.17142 1 0.54381 1 0.47512 1 0.5773 1 0.38655 1 0.5789 1 del_3p14.2 119 (19%) 496 0.61998 1 0.46674 1 0.45413 1 0.89989 1 0.4703 1 0.24578 1 0.33856 1 0.33192 1 0.38477 1 0.30867 1 0.99421 1 0.67235 1 del_3q26.31 64 (10%) 551 0.64167 1 0.88294 1 0.38097 1 0.69769 1 0.77041 1 0.55041 1 0.77769 1 0.64686 1 0.72313 1 0.26096 1 0.16074 1 0.92359 1 del_4p16.2 202 (33%) 413 0.054349 1 0.03481 1 9.9999e-06 0.00876 0.00286 1 0.43143 1 0.29349 1 0.0094499 1 8.9999e-05 0.0628 0.37882 1 0.2384 1 0.055389 1 0.92139 1 del_4q22.1 224 (36%) 391 0.01675 1 0.0289 1 9.9999e-06 0.00876 6.9999e-05 0.0495 0.58282 1 0.66959 1 0.00024 0.162 2e-05 0.0147 0.01835 1 0.1302 1 0.03926 1 0.20781 1 del_4q35.1 233 (38%) 382 0.02113 1 0.057419 1 9.9999e-06 0.00876 4e-05 0.0286 0.35018 1 0.76226 1 0.00049 0.322 9.9999e-06 0.00876 0.19447 1 0.4422 1 0.21554 1 0.61326 1 del_5q12.1 158 (26%) 457 0.00049 0.322 2e-04 0.136 9.9999e-06 0.00876 0.00343 1 0.04477 1 0.1712 1 0.0057399 1 5e-05 0.0356 0.7005 1 0.97498 1 0.14823 1 0.6193 1 del_5q21.2 187 (30%) 428 0.054719 1 0.01341 1 9.9999e-06 0.00876 0.062799 1 0.077289 1 0.075969 1 0.20471 1 0.00106 0.676 0.63253 1 0.83578 1 0.15269 1 0.8756 1 del_5q22.2 189 (31%) 426 0.00080999 0.521 0.00072999 0.471 9.9999e-06 0.00876 0.092739 1 0.27306 1 0.37992 1 0.078469 1 0.00022 0.149 0.46873 1 0.35069 1 0.2081 1 0.78385 1 del_6p25.3 80 (13%) 535 0.90763 1 0.34607 1 0.3695 1 0.26061 1 0.03563 1 0.62878 1 0.54758 1 0.75946 1 0.58519 1 0.72393 1 0.62215 1 0.8284 1 del_6q26 92 (15%) 523 0.80116 1 0.85017 1 0.77084 1 0.92104 1 0.04421 1 0.12656 1 0.087899 1 0.085729 1 0.37549 1 0.36028 1 0.21457 1 0.58545 1 del_7q31.1 17 (3%) 598 0.29198 1 0.68741 1 0.63615 1 1 1 0.68614 1 0.21688 1 0.72638 1 0.83323 1 0.10884 1 0.94724 1 0.25294 1 1 1 del_8p23.2 290 (47%) 325 0.00018 0.123 0.00088999 0.57 9.9999e-06 0.00876 9.9999e-06 0.00876 0.1492 1 0.03081 1 2e-05 0.0147 9.9999e-06 0.00876 0.16238 1 0.03087 1 0.004 1 0.51505 1 del_8p22 303 (49%) 312 0.00114 0.726 0.00032 0.214 9.9999e-06 0.00876 9.9999e-06 0.00876 0.14732 1 0.0078699 1 9.9999e-05 0.0693 9.9999e-06 0.00876 0.31691 1 0.061399 1 0.0051799 1 0.61713 1 del_8q11.1 47 (8%) 568 0.58154 1 0.18069 1 2e-05 0.0147 0.39367 1 0.28449 1 0.30356 1 0.32123 1 0.03664 1 0.16477 1 0.093629 1 0.59757 1 0.65198 1 del_9p24.2 84 (14%) 531 0.21803 1 0.29791 1 0.00458 1 0.11174 1 0.59783 1 1 1 0.0096199 1 0.0078299 1 0.2115 1 0.02252 1 0.67941 1 0.56626 1 del_10p15.3 115 (19%) 500 0.15399 1 0.19415 1 9.9999e-06 0.00876 0.00404 1 0.01644 1 0.12437 1 0.00318 1 4e-05 0.0286 0.63682 1 0.49792 1 0.01058 1 0.04381 1 del_10q21.1 139 (23%) 476 0.03267 1 0.11752 1 9.9999e-06 0.00876 0.0141 1 0.04477 1 0.073029 1 3e-05 0.0217 0.00059999 0.389 0.6719 1 0.095629 1 0.35154 1 0.48299 1 del_10q23.31 161 (26%) 454 0.11423 1 0.2413 1 9.9999e-06 0.00876 0.03989 1 0.084719 1 0.30523 1 0.00153 0.964 0.00019 0.13 0.52358 1 0.13449 1 0.12098 1 0.1313 1 del_10q25.2 157 (26%) 458 0.22317 1 0.2991 1 9.9999e-06 0.00876 0.0167 1 0.0060199 1 0.14972 1 0.00044 0.291 9.9999e-06 0.00876 0.99095 1 0.20625 1 0.16641 1 0.36267 1 del_11q22.3 111 (18%) 504 0.38136 1 0.23056 1 0.0069299 1 0.12544 1 0.40805 1 1 1 0.63582 1 0.1145 1 0.81796 1 0.49142 1 0.3697 1 0.37386 1 del_12p13.1 92 (15%) 523 0.00472 1 0.00177 1 9.9999e-06 0.00876 0.04602 1 0.91013 1 0.47321 1 0.02083 1 0.00011 0.076 0.7089 1 0.75678 1 0.02871 1 0.0265 1 del_12q21.33 90 (15%) 525 0.03469 1 0.03433 1 9.9999e-06 0.00876 0.03007 1 0.53858 1 0.89119 1 0.066019 1 0.00319 1 0.83088 1 0.77059 1 0.47684 1 0.19997 1 del_14q11.2 212 (34%) 403 9.9999e-06 0.00876 6.9999e-05 0.0495 9.9999e-06 0.00876 2e-05 0.0147 0.0074899 1 0.14048 1 9.9999e-06 0.00876 9.9999e-06 0.00876 0.057599 1 0.12019 1 0.04028 1 0.04379 1 del_14q31.1 218 (35%) 397 0.00055999 0.364 0.00057999 0.376 9.9999e-06 0.00876 4e-05 0.0286 0.00127 0.805 0.14025 1 9.9999e-06 0.00876 9.9999e-06 0.00876 0.24252 1 0.10048 1 0.35709 1 0.074219 1 del_15q11.2 253 (41%) 362 0.00054999 0.358 0.00384 1 9.9999e-06 0.00876 0.00025 0.168 0.13225 1 0.36498 1 3e-05 0.0217 9.9999e-06 0.00876 0.43473 1 0.43131 1 0.04527 1 0.066809 1 del_15q15.2 251 (41%) 364 2e-05 0.0147 0.00207 1 9.9999e-06 0.00876 0.00039 0.259 0.094819 1 0.37058 1 3e-05 0.0217 9.9999e-06 0.00876 0.62767 1 0.4157 1 0.056569 1 0.41589 1 del_15q21.1 248 (40%) 367 0.00047 0.31 0.02356 1 9.9999e-06 0.00876 0.00049 0.322 0.095629 1 0.3475 1 6.9999e-05 0.0495 9.9999e-06 0.00876 0.67256 1 0.46644 1 0.066229 1 0.42327 1 del_15q22.33 238 (39%) 377 3e-05 0.0217 0.00092999 0.595 9.9999e-06 0.00876 6.9999e-05 0.0495 0.55502 1 0.32586 1 2e-05 0.0147 9.9999e-06 0.00876 0.78686 1 0.89879 1 0.083529 1 0.14517 1 del_16p13.3 69 (11%) 546 0.092639 1 0.076889 1 0.21989 1 0.38711 1 0.54105 1 0.97137 1 0.52168 1 0.55972 1 0.6703 1 0.13417 1 0.27753 1 0.92899 1 del_16q23.1 84 (14%) 531 0.04468 1 0.00356 1 0.1677 1 0.33284 1 0.25068 1 0.80231 1 0.46644 1 0.04516 1 0.60682 1 0.27314 1 0.93868 1 0.39897 1 del_17p12 370 (60%) 245 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 0.01779 1 0.0069099 1 9.9999e-06 0.00876 9.9999e-06 0.00876 0.01281 1 0.01199 1 0.03625 1 0.16211 1 del_17q24.3 95 (15%) 520 0.97591 1 0.72875 1 0.0056499 1 1 1 0.90569 1 0.23071 1 0.48135 1 0.14366 1 0.64421 1 0.46808 1 0.30607 1 0.55159 1 del_18p11.31 370 (60%) 245 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 0.057539 1 0.11592 1 9.9999e-06 0.00876 9.9999e-06 0.00876 0.0035 1 0.0070799 1 3e-05 0.0217 0.00041 0.271 del_18q12.2 416 (68%) 199 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 0.04998 1 0.060529 1 9.9999e-06 0.00876 9.9999e-06 0.00876 0.00073999 0.477 0.0078299 1 9.9999e-06 0.00876 6.9999e-05 0.0495 del_18q21.2 432 (70%) 183 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 0.01198 1 0.02419 1 9.9999e-06 0.00876 9.9999e-06 0.00876 5.9999e-05 0.0425 0.03093 1 9.9999e-06 0.00876 5e-05 0.0356 del_18q22.1 427 (69%) 188 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 9.9999e-06 0.00876 0.03053 1 0.03775 1 9.9999e-06 0.00876 9.9999e-06 0.00876 6.9999e-05 0.0495 0.088259 1 2e-05 0.0147 0.00066999 0.433 del_19p13.3 97 (16%) 518 0.11827 1 0.46539 1 2e-05 0.0147 0.40363 1 0.88082 1 0.10203 1 0.19784 1 0.02031 1 0.64858 1 0.0050199 1 0.03605 1 0.19132 1 del_20p12.1 135 (22%) 480 0.056309 1 0.00069999 0.452 9.9999e-06 0.00876 9.9999e-06 0.00876 0.60487 1 0.76576 1 7.9999e-05 0.056 9.9999e-06 0.00876 0.03089 1 0.01265 1 0.87077 1 0.12816 1 del_21q11.2 214 (35%) 401 0.0203 1 0.00169 1 9.9999e-06 0.00876 0.02059 1 0.45613 1 0.70779 1 6.9999e-05 0.0495 0.00047 0.31 0.03854 1 0.31709 1 0.66665 1 0.34638 1 del_22q13.32 229 (37%) 386 0.00221 1 0.00013 0.0894 9.9999e-06 0.00876 0.01621 1 0.47565 1 0.54163 1 0.00441 1 9.9999e-06 0.00876 0.89513 1 0.27132 1 0.34744 1 0.47707 1