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_1q31.1 142 (24%) 458 0.58347 1 0.55185 1 3e-05 0.0213 0.48686 1 0.36125 1 0.12381 1 0.91324 1 0.15429 1 0.34725 1 0.25376 1 0.0246 1 0.115 1 amp_2q33.1 134 (22%) 466 0.066979 1 0.00042 0.265 9.9999e-06 0.009 0.00128 0.751 0.23789 1 0.65702 1 0.00011 0.0745 5e-05 0.0346 0.055949 1 0.04349 1 0.18217 1 0.00064999 0.4 amp_5p12 112 (19%) 488 0.13071 1 0.02023 1 2e-05 0.0145 0.80755 1 0.00151 0.879 0.13579 1 0.00095999 0.578 0.0097699 1 0.91323 1 0.34261 1 3e-05 0.0213 0.0052899 1 amp_5q22.3 63 (10%) 537 0.60173 1 0.58034 1 0.0053499 1 0.5132 1 0.46538 1 0.30836 1 0.66592 1 0.14383 1 0.61675 1 0.12569 1 0.23582 1 0.076059 1 amp_6p21.1 151 (25%) 449 0.03025 1 0.00017 0.112 9.9999e-06 0.009 0.20881 1 0.58992 1 0.73288 1 0.059739 1 0.00036 0.229 0.18229 1 0.70465 1 0.00254 1 2e-05 0.0145 amp_8p11.23 206 (34%) 394 0.39563 1 0.21005 1 9.9999e-06 0.009 0.3436 1 0.76768 1 0.98743 1 0.00372 1 0.0063699 1 0.0127 1 0.082069 1 0.082569 1 0.058609 1 amp_8p11.21 250 (42%) 350 0.17131 1 0.1099 1 9.9999e-06 0.009 0.20248 1 0.72322 1 0.35778 1 0.01537 1 0.03364 1 0.080529 1 0.24931 1 0.38278 1 0.11707 1 amp_8q12.1 322 (54%) 278 0.14308 1 0.0425 1 9.9999e-06 0.009 0.02359 1 0.0276 1 0.02317 1 5.9999e-05 0.0411 0.00061999 0.384 0.11064 1 0.01554 1 0.00312 1 0.00046 0.288 amp_8q24.21 357 (60%) 243 0.24001 1 0.051289 1 9.9999e-06 0.009 0.00055999 0.349 0.02647 1 0.04015 1 9.9999e-06 0.009 0.00203 1 0.14207 1 0.03314 1 0.00122 0.72 0.00011 0.0745 amp_10q22.3 36 (6%) 564 1 1 0.86005 1 0.41407 1 0.59688 1 0.29628 1 0.68763 1 0.65291 1 0.30565 1 0.43532 1 0.97391 1 0.0060599 1 0.35451 1 amp_11p15.5 135 (22%) 465 0.00144 0.841 0.00192 1 2e-05 0.0145 0.00037 0.235 0.03016 1 0.083129 1 9.9999e-06 0.009 3e-05 0.0213 0.42838 1 9.9999e-06 0.009 0.00022 0.144 9.9999e-06 0.009 amp_12p13.32 147 (24%) 453 0.65004 1 0.59334 1 0.24307 1 0.01961 1 0.47804 1 0.30342 1 0.69059 1 0.69794 1 0.71613 1 1 1 0.41576 1 0.72656 1 amp_13q12.13 390 (65%) 210 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 0.01658 1 0.01645 1 9.9999e-06 0.009 9.9999e-06 0.009 0.00024 0.156 0.48519 1 9.9999e-06 0.009 9.9999e-06 0.009 amp_13q12.2 385 (64%) 215 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 0.01921 1 0.04036 1 9.9999e-06 0.009 9.9999e-06 0.009 0.00054999 0.344 0.70971 1 9.9999e-06 0.009 9.9999e-06 0.009 amp_13q22.1 387 (64%) 213 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 0.084669 1 0.096239 1 9.9999e-06 0.009 9.9999e-06 0.009 0.00108 0.644 0.34257 1 9.9999e-06 0.009 9.9999e-06 0.009 amp_15q26.1 42 (7%) 558 0.70948 1 0.66217 1 0.39411 1 0.60933 1 0.23575 1 0.46993 1 0.51767 1 0.15182 1 0.71628 1 0.8261 1 0.77212 1 0.97866 1 amp_16p11.2 166 (28%) 434 0.01766 1 0.00215 1 9.9999e-06 0.009 0.00073999 0.452 0.02678 1 0.054099 1 0.00011 0.0745 5e-05 0.0346 0.44597 1 0.71967 1 0.00060999 0.378 2e-05 0.0145 amp_17q12 152 (25%) 448 0.02489 1 0.0072399 1 9.9999e-06 0.009 0.00057999 0.361 0.16134 1 0.088579 1 0.00034 0.217 9.9999e-06 0.009 0.0057599 1 0.02246 1 0.26336 1 0.04012 1 amp_17q24.1 138 (23%) 462 0.0095099 1 0.0076699 1 9.9999e-06 0.009 3e-04 0.193 0.088559 1 0.02467 1 0.00041 0.26 9.9999e-06 0.009 0.00021 0.138 0.03185 1 0.41215 1 0.0041 1 amp_19p13.2 105 (18%) 495 0.10775 1 0.0078999 1 9.9999e-06 0.009 0.01773 1 0.46193 1 0.67738 1 0.01751 1 0.00017 0.112 0.11327 1 0.67121 1 0.085629 1 0.01874 1 amp_19q12 132 (22%) 468 0.02897 1 0.00158 0.918 9.9999e-06 0.009 0.28544 1 0.075239 1 0.43134 1 0.067979 1 0.00133 0.779 0.18792 1 0.87726 1 0.24475 1 0.02475 1 amp_20p11.23 315 (52%) 285 0.00417 1 0.00404 1 9.9999e-06 0.009 0.0087899 1 0.00306 1 0.052119 1 0.00011 0.0745 9.9999e-06 0.009 0.18295 1 0.02411 1 3e-05 0.0213 0.00011 0.0745 amp_20p11.21 354 (59%) 246 0.00015 0.0999 2e-05 0.0145 9.9999e-06 0.009 3e-05 0.0213 0.0055899 1 0.13767 1 9.9999e-06 0.009 9.9999e-06 0.009 0.02002 1 0.0078199 1 9.9999e-06 0.009 9.9999e-06 0.009 amp_20q11.21 457 (76%) 143 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 0.0071099 1 0.01326 1 9.9999e-06 0.009 9.9999e-06 0.009 0.01816 1 0.00027 0.174 9.9999e-06 0.009 9.9999e-06 0.009 amp_20q12 459 (76%) 141 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 0.01125 1 0.0064299 1 9.9999e-06 0.009 9.9999e-06 0.009 0.0075199 1 0.00017 0.112 9.9999e-06 0.009 9.9999e-06 0.009 amp_20q13.31 461 (77%) 139 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 0.0145 1 0.0055099 1 9.9999e-06 0.009 9.9999e-06 0.009 0.01561 1 0.00032 0.205 9.9999e-06 0.009 9.9999e-06 0.009 amp_xq28 121 (20%) 479 0.30854 1 0.54787 1 2e-05 0.0145 0.25778 1 0.00482 1 0.024 1 0.70536 1 0.77432 1 0.91073 1 0.87115 1 0.087749 1 0.14356 1 del_1p36.11 238 (40%) 362 5e-05 0.0346 0.00056999 0.355 9.9999e-06 0.009 2e-05 0.0145 0.11217 1 0.106 1 2e-05 0.0145 9.9999e-06 0.009 0.40216 1 0.01041 1 0.00354 1 0.00081999 0.497 del_1p33 171 (28%) 429 0.02035 1 0.082819 1 9.9999e-06 0.009 0.00061999 0.384 0.83106 1 0.55728 1 0.00017 0.112 0.0064099 1 0.454 1 0.11024 1 0.00191 1 0.00081999 0.497 del_1p13.2 171 (28%) 429 0.26756 1 0.40271 1 9.9999e-06 0.009 0.01539 1 0.76343 1 0.83041 1 0.00091999 0.555 0.00101 0.605 0.51086 1 0.11835 1 0.01091 1 0.01296 1 del_2p12 21 (4%) 579 1 1 0.96322 1 0.00099999 0.6 0.00381 1 0.3654 1 1 1 0.04992 1 0.059699 1 0.0062799 1 0.092559 1 1 1 0.61613 1 del_2q22.1 34 (6%) 566 0.92537 1 0.60847 1 0.080829 1 0.72539 1 0.34155 1 0.35117 1 0.49099 1 0.13536 1 0.57882 1 0.11337 1 0.7092 1 1 1 del_2q37.2 31 (5%) 569 0.98446 1 0.54982 1 0.47119 1 0.83215 1 0.93726 1 0.061339 1 0.74725 1 0.21013 1 0.47593 1 0.01559 1 0.20825 1 0.89075 1 del_3p26.3 91 (15%) 509 0.35824 1 0.49376 1 0.10313 1 0.92051 1 0.65198 1 0.97854 1 0.30414 1 0.16235 1 0.47559 1 0.57574 1 0.062669 1 0.51338 1 del_3p14.2 112 (19%) 488 0.62103 1 0.46654 1 0.7547 1 0.79803 1 0.46992 1 0.24518 1 0.37266 1 0.49116 1 0.38333 1 0.30375 1 0.080979 1 0.32245 1 del_3q26.31 62 (10%) 538 0.60526 1 0.87592 1 0.24111 1 0.54506 1 0.25142 1 0.30036 1 0.22854 1 0.36129 1 0.45332 1 0.074449 1 0.25051 1 0.01793 1 del_4p16.1 195 (32%) 405 0.052769 1 0.03617 1 9.9999e-06 0.009 0.00267 1 0.42997 1 0.29887 1 0.0095599 1 0.00014 0.0937 0.35882 1 0.32967 1 0.00016 0.106 0.00025 0.163 del_4q22.1 216 (36%) 384 0.01701 1 0.02961 1 9.9999e-06 0.009 5e-05 0.0346 0.58683 1 0.67114 1 3e-04 0.193 2e-05 0.0145 0.0183 1 0.13036 1 0.00122 0.72 0.00015 0.0999 del_4q35.1 225 (38%) 375 0.01985 1 0.057729 1 9.9999e-06 0.009 2e-05 0.0145 0.28177 1 0.57885 1 0.00028 0.181 0.00118 0.699 0.19508 1 0.3244 1 7.9999e-05 0.0546 0.00042 0.265 del_5q11.2 151 (25%) 449 0.00063999 0.394 0.00025 0.163 9.9999e-06 0.009 0.00316 1 0.0313 1 0.17343 1 0.00205 1 0.00062999 0.389 0.77067 1 0.94309 1 2e-05 0.0145 9.9999e-06 0.009 del_5q22.2 182 (30%) 418 0.00080999 0.492 0.00080999 0.492 9.9999e-06 0.009 0.11665 1 0.27204 1 0.37714 1 0.03324 1 0.00162 0.94 0.46669 1 0.35013 1 0.00145 0.845 4e-05 0.028 del_6p25.3 79 (13%) 521 0.90604 1 0.34823 1 0.04143 1 0.24066 1 0.03573 1 0.63457 1 0.61469 1 0.74455 1 0.58384 1 0.7233 1 0.5001 1 0.84658 1 del_6q26 90 (15%) 510 0.79871 1 0.85415 1 0.077339 1 0.904 1 0.04377 1 0.12443 1 0.10108 1 0.097119 1 0.37578 1 0.36503 1 0.52836 1 0.57458 1 del_7q31.1 16 (3%) 584 0.29092 1 0.69079 1 0.95792 1 1 1 0.68373 1 0.21625 1 0.7424 1 0.65905 1 0.10774 1 0.9482 1 0.14227 1 0.26321 1 del_8p23.2 282 (47%) 318 0.00025 0.163 0.00098999 0.595 9.9999e-06 0.009 9.9999e-06 0.009 0.15049 1 0.03054 1 9.9999e-06 0.009 9.9999e-06 0.009 0.16321 1 0.03021 1 4e-05 0.028 9.9999e-06 0.009 del_8p22 297 (50%) 303 0.00121 0.715 0.00037 0.235 9.9999e-06 0.009 9.9999e-06 0.009 0.10789 1 0.0087299 1 2e-05 0.0145 9.9999e-06 0.009 0.27197 1 0.03059 1 3e-05 0.0213 9.9999e-06 0.009 del_8p11.21 130 (22%) 470 0.03581 1 0.00236 1 9.9999e-06 0.009 0.03268 1 0.082119 1 0.085869 1 0.00025 0.163 0.00101 0.605 0.20125 1 0.00482 1 0.46518 1 0.078139 1 del_8q11.1 46 (8%) 554 0.58194 1 0.18109 1 9.9999e-06 0.009 0.3803 1 0.2851 1 0.30392 1 0.2696 1 0.062139 1 0.16574 1 0.092659 1 0.58969 1 0.64229 1 del_9p24.2 81 (14%) 519 0.2185 1 0.29866 1 0.00021 0.138 0.12881 1 0.5999 1 1 1 0.00314 1 0.00337 1 0.21603 1 0.0232 1 0.03807 1 0.092069 1 del_10q21.1 128 (21%) 472 0.11196 1 0.17676 1 9.9999e-06 0.009 0.01545 1 0.083059 1 0.085539 1 2e-05 0.0145 0.00329 1 0.69039 1 0.22314 1 0.00397 1 0.03089 1 del_10q23.31 156 (26%) 444 0.11385 1 0.24255 1 9.9999e-06 0.009 0.04098 1 0.086199 1 0.30422 1 0.00034 0.217 0.00014 0.0937 0.5294 1 0.13607 1 5e-05 0.0346 0.00021 0.138 del_10q25.2 152 (25%) 448 0.2233 1 0.29597 1 9.9999e-06 0.009 0.01691 1 0.0055099 1 0.15236 1 3e-05 0.0213 9.9999e-06 0.009 0.99148 1 0.20599 1 0.00015 0.0999 8.9999e-05 0.0611 del_11q22.3 111 (18%) 489 0.38538 1 0.23371 1 0.02449 1 0.13113 1 0.24961 1 0.9813 1 0.79328 1 0.62256 1 0.83861 1 0.42839 1 0.23813 1 0.24949 1 del_12p13.1 90 (15%) 510 0.0050899 1 0.00167 0.967 9.9999e-06 0.009 0.03328 1 0.91048 1 0.47232 1 0.093549 1 0.01372 1 0.7095 1 0.75538 1 0.00471 1 0.00113 0.67 del_12q21.33 88 (15%) 512 0.03477 1 0.03508 1 9.9999e-06 0.009 0.0252 1 0.54223 1 0.89083 1 0.04733 1 0.0089399 1 0.83407 1 0.76992 1 0.01798 1 0.04065 1 del_14q11.2 204 (34%) 396 4e-05 0.028 9.9999e-06 0.009 9.9999e-06 0.009 4e-05 0.028 0.0074099 1 0.14219 1 9.9999e-06 0.009 9.9999e-06 0.009 0.058669 1 0.12316 1 9.9999e-06 0.009 9.9999e-06 0.009 del_14q31.1 211 (35%) 389 0.00044 0.276 0.00041 0.26 9.9999e-06 0.009 5.9999e-05 0.0411 0.00112 0.665 0.14211 1 9.9999e-06 0.009 9.9999e-06 0.009 0.27074 1 0.10238 1 9.9999e-06 0.009 9.9999e-06 0.009 del_14q31.1 212 (35%) 388 0.00036 0.229 0.00043 0.27 9.9999e-06 0.009 3e-05 0.0213 0.00102 0.609 0.13148 1 9.9999e-06 0.009 9.9999e-06 0.009 0.20672 1 0.084709 1 9.9999e-06 0.009 9.9999e-06 0.009 del_15q11.2 245 (41%) 355 0.00059999 0.373 0.00375 1 9.9999e-06 0.009 0.00032 0.205 0.13157 1 0.36667 1 2e-05 0.0145 9.9999e-06 0.009 0.43384 1 0.43016 1 9.9999e-06 0.009 2e-05 0.0145 del_15q15.2 243 (40%) 357 4e-05 0.028 0.00178 1 9.9999e-06 0.009 0.00049 0.307 0.094329 1 0.37031 1 5e-05 0.0346 9.9999e-06 0.009 0.62561 1 0.41594 1 5e-05 0.0346 3e-05 0.0213 del_15q21.1 240 (40%) 360 0.00032 0.205 0.02385 1 9.9999e-06 0.009 0.00066999 0.41 0.094969 1 0.34762 1 0.00014 0.0937 9.9999e-06 0.009 0.67266 1 0.46577 1 6.9999e-05 0.0478 3e-05 0.0213 del_15q22.33 231 (38%) 369 0.00015 0.0999 0.00126 0.741 9.9999e-06 0.009 7.9999e-05 0.0546 0.555 1 0.328 1 9.9999e-06 0.009 9.9999e-06 0.009 0.78765 1 0.89834 1 9.9999e-06 0.009 9.9999e-06 0.009 del_16p13.3 68 (11%) 532 0.093289 1 0.077469 1 0.095459 1 0.32946 1 0.54182 1 0.9712 1 0.38885 1 0.53477 1 0.67076 1 0.13243 1 0.565 1 0.86249 1 del_16q23.1 82 (14%) 518 0.04454 1 0.00362 1 0.29138 1 0.37551 1 0.25327 1 0.8012 1 0.55975 1 0.12278 1 0.60632 1 0.26928 1 0.73013 1 0.52374 1 del_17p12 360 (60%) 240 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 0.01826 1 0.0064599 1 9.9999e-06 0.009 9.9999e-06 0.009 0.01274 1 0.01268 1 9.9999e-06 0.009 9.9999e-06 0.009 del_17q24.3 90 (15%) 510 0.97593 1 0.72755 1 0.01895 1 0.96481 1 0.87536 1 0.55745 1 0.33637 1 0.0324 1 0.84277 1 0.44604 1 0.02487 1 0.26212 1 del_18p11.31 358 (60%) 242 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 0.057919 1 0.11641 1 9.9999e-06 0.009 9.9999e-06 0.009 0.00313 1 0.0068599 1 9.9999e-06 0.009 9.9999e-06 0.009 del_18q12.2 402 (67%) 198 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 0.03527 1 0.065399 1 9.9999e-06 0.009 9.9999e-06 0.009 0.0011 0.654 0.0073699 1 9.9999e-06 0.009 9.9999e-06 0.009 del_18q21.2 420 (70%) 180 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 0.01488 1 0.02583 1 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-05 0.0678 0.02918 1 9.9999e-06 0.009 9.9999e-06 0.009 del_18q22.1 415 (69%) 185 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 9.9999e-06 0.009 0.03113 1 0.03855 1 9.9999e-06 0.009 9.9999e-06 0.009 0.00013 0.0871 0.087619 1 9.9999e-06 0.009 9.9999e-06 0.009 del_19p13.3 97 (16%) 503 0.11775 1 0.46465 1 9.9999e-06 0.009 0.37917 1 0.8816 1 0.10098 1 0.19117 1 0.1185 1 0.64544 1 0.0053099 1 0.01538 1 0.062339 1 del_20p12.1 184 (31%) 416 0.01967 1 0.00065999 0.405 9.9999e-06 0.009 9.9999e-06 0.009 0.79014 1 0.6973 1 0.00076999 0.469 7.9999e-05 0.0546 0.076919 1 0.0073199 1 0.11179 1 0.00025 0.163 del_20p12.1 184 (31%) 416 0.02008 1 0.00086999 0.525 9.9999e-06 0.009 2e-05 0.0145 0.78824 1 0.69758 1 0.00064999 0.4 4e-05 0.028 0.074069 1 0.0074699 1 0.10934 1 0.00017 0.112 del_21q11.2 208 (35%) 392 0.01975 1 0.00173 1 9.9999e-06 0.009 0.02803 1 0.45484 1 0.70839 1 2e-05 0.0145 0.0068699 1 0.03891 1 0.31569 1 0.00011 0.0745 0.00133 0.779 del_22q13.32 222 (37%) 378 0.00253 1 0.00012 0.0805 9.9999e-06 0.009 0.01747 1 0.51294 1 0.59286 1 0.00075999 0.464 4e-05 0.028 0.93807 1 0.22837 1 4e-05 0.028 0.00228 1