Clinical Features MRNA_CNMF MRNA_CHIERARCHICAL MIR_CNMF MIR_CHIERARCHICAL CN_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 Fisher's exact test_P Fisher's exact test_Q 1p gain 166 (29%) 403 0.10585 1 0.32463 1 0.11919 1 0.68455 1 0.00258 1 0.092409 1 0.30775 1 0.6119 1 0.94944 1 0.21499 1 0.61778 1 0.15083 1 0.33916 1 1q gain 218 (38%) 351 0.77968 1 0.2704 1 0.69455 1 0.22904 1 9.9999e-06 0.0104 0.45349 1 0.50737 1 0.43537 1 0.27588 1 0.20388 1 0.098359 1 0.11563 1 0.17552 1 2p gain 178 (31%) 391 9.9999e-06 0.0104 9.9999e-06 0.0104 0.82113 1 0.00042 0.42 9.9999e-06 0.0104 0.03883 1 0.094249 1 0.00014 0.142 0.00158 1 0.82269 1 0.02682 1 0.7915 1 1 1 2q gain 150 (26%) 419 0.00044 0.44 5e-05 0.051 0.98425 1 0.00491 1 9.9999e-06 0.0104 0.098749 1 0.40709 1 0.00371 1 0.01866 1 0.611 1 0.0061399 1 0.10458 1 0.7258 1 3p gain 154 (27%) 415 0.33937 1 0.38882 1 0.04408 1 0.37374 1 0.01257 1 1 1 0.40562 1 0.78253 1 0.76607 1 0.91761 1 0.82097 1 0.90566 1 1 1 3q gain 268 (47%) 301 0.97482 1 0.80598 1 0.25654 1 0.42941 1 2e-05 0.0204 0.59413 1 0.25634 1 0.69637 1 0.92613 1 0.18142 1 0.087919 1 0.11838 1 0.20608 1 4p gain 57 (10%) 512 0.24609 1 0.19046 1 0.00486 1 0.059549 1 0.13386 1 0.45614 1 0.39672 1 0.60585 1 0.84088 1 0.31997 1 0.01862 1 0.5827 1 0.15758 1 4q gain 32 (6%) 537 0.67308 1 0.6964 1 0.15275 1 0.20699 1 0.03713 1 0.2697 1 0.45018 1 0.76391 1 0.85558 1 0.37416 1 0.04424 1 0.49519 1 0.16551 1 5p gain 196 (34%) 373 0.59316 1 0.67139 1 0.85445 1 0.7355 1 0.00012 0.122 0.48468 1 0.088319 1 0.1304 1 0.53745 1 0.23019 1 0.63416 1 0.63154 1 0.18124 1 5q gain 60 (11%) 509 0.083439 1 0.24412 1 0.80178 1 0.8322 1 0.50985 1 0.44133 1 0.38946 1 0.70891 1 0.41293 1 0.49578 1 0.81029 1 0.62927 1 0.31072 1 6p gain 166 (29%) 403 0.51144 1 0.00438 1 0.90135 1 0.0129 1 9.9999e-06 0.0104 0.86393 1 0.22767 1 0.15816 1 0.0078999 1 0.3613 1 0.065019 1 0.43593 1 0.86436 1 6q gain 96 (17%) 473 0.65481 1 0.052469 1 0.82179 1 0.02022 1 9.9999e-06 0.0104 0.78839 1 0.99712 1 0.0050499 1 0.02217 1 0.19376 1 0.02971 1 0.46853 1 0.6427 1 7p gain 181 (32%) 388 0.63093 1 0.53481 1 0.071999 1 0.10323 1 9.9999e-06 0.0104 0.50307 1 0.40157 1 0.56727 1 0.69815 1 0.92456 1 0.11501 1 0.36294 1 0.43505 1 7q gain 198 (35%) 371 0.65315 1 0.084749 1 0.29732 1 0.37884 1 2e-05 0.0204 0.46271 1 0.24725 1 0.9249 1 0.64328 1 0.15257 1 0.63281 1 0.053809 1 0.45067 1 8p gain 117 (21%) 452 0.070899 1 0.00363 1 0.29883 1 0.36229 1 0.71547 1 0.13641 1 0.0070499 1 0.6159 1 1 1 0.10206 1 0.49555 1 0.17688 1 0.066269 1 8q gain 238 (42%) 331 0.01996 1 0.00092999 0.917 0.061379 1 0.20044 1 0.17474 1 0.32041 1 0.38653 1 0.03078 1 0.086189 1 0.46421 1 0.86456 1 0.29349 1 0.37859 1 9p gain 91 (16%) 478 0.1126 1 0.42396 1 0.23753 1 0.86586 1 0.01902 1 0.39504 1 0.7267 1 0.69338 1 0.41195 1 0.1857 1 0.18646 1 0.49625 1 0.32926 1 9q gain 45 (8%) 524 0.25237 1 0.30304 1 0.090709 1 0.53386 1 0.17013 1 0.57662 1 0.0266 1 0.48573 1 0.089989 1 0.49876 1 0.75411 1 0.47376 1 0.50279 1 10p gain 184 (32%) 385 0.00397 1 0.021 1 0.67943 1 0.37638 1 9.9999e-06 0.0104 0.97938 1 0.01007 1 0.01113 1 0.12372 1 0.55997 1 0.00064999 0.646 0.51148 1 0.89237 1 10q gain 108 (19%) 461 0.00375 1 0.0091899 1 0.24211 1 0.11773 1 0.0012 1 0.76511 1 0.062209 1 0.10453 1 0.21996 1 0.72827 1 0.24439 1 0.96019 1 0.29394 1 11p gain 76 (13%) 493 0.71065 1 0.10036 1 0.63963 1 0.46763 1 0.34321 1 0.02824 1 0.02601 1 0.059159 1 0.03594 1 0.56098 1 0.83864 1 0.8923 1 0.36096 1 11q gain 114 (20%) 455 0.45563 1 0.33814 1 0.87621 1 0.12038 1 0.03937 1 0.16539 1 0.00037 0.371 0.30214 1 0.15783 1 0.51423 1 0.80777 1 0.8424 1 0.7617 1 12p gain 250 (44%) 319 7.9999e-05 0.0814 0.00075999 0.755 0.74236 1 4e-04 0.4 9.9999e-06 0.0104 0.30458 1 0.3191 1 0.00038 0.381 0.00188 1 0.18304 1 0.00023 0.232 0.30262 1 0.10957 1 12q gain 174 (31%) 395 0.0060099 1 0.056909 1 0.65071 1 0.04857 1 9.9999e-06 0.0104 0.02564 1 0.25454 1 0.00185 1 0.0084699 1 0.10215 1 0.01106 1 0.58105 1 0.10141 1 13q gain 60 (11%) 509 0.0059099 1 2e-04 0.202 0.57385 1 0.01662 1 0.00016 0.162 0.59333 1 0.31702 1 0.23123 1 0.43005 1 0.1918 1 0.072219 1 0.94119 1 0.68562 1 14q gain 58 (10%) 511 0.14094 1 0.19116 1 0.40594 1 0.69876 1 0.79927 1 0.33083 1 0.17279 1 0.50454 1 0.57034 1 0.65665 1 0.63167 1 0.56325 1 0.71795 1 15q gain 39 (7%) 530 0.8464 1 0.4806 1 0.085219 1 0.75547 1 0.41887 1 0.11394 1 0.10765 1 0.73479 1 0.93267 1 0.31562 1 0.20035 1 0.52596 1 0.10924 1 16p gain 58 (10%) 511 0.00273 1 0.00482 1 0.4022 1 0.17657 1 0.088989 1 0.34341 1 0.03457 1 0.65066 1 0.79884 1 0.12295 1 0.080829 1 0.19711 1 0.063599 1 16q gain 30 (5%) 539 0.00086999 0.86 0.04332 1 0.16202 1 0.22115 1 0.68834 1 0.45016 1 0.02663 1 1 1 0.36098 1 0.00096999 0.954 0.10458 1 0.00249 1 0.00060999 0.607 17p gain 22 (4%) 547 0.43282 1 0.11247 1 0.056119 1 0.052189 1 0.22451 1 0.50019 1 0.40782 1 0.21239 1 0.00336 1 0.17544 1 0.83728 1 0.41098 1 0.67029 1 17q gain 49 (9%) 520 0.32165 1 0.04412 1 0.8597 1 0.04866 1 0.7907 1 0.44815 1 0.27674 1 0.93675 1 0.02289 1 0.79084 1 0.84861 1 0.45458 1 0.9304 1 18p gain 117 (21%) 452 0.2282 1 0.13299 1 0.92844 1 0.40251 1 0.0051199 1 0.02224 1 0.1105 1 0.81212 1 0.68944 1 0.35215 1 0.23358 1 0.3483 1 0.30647 1 18q gain 71 (12%) 498 0.64828 1 0.23733 1 0.28525 1 0.35935 1 0.051789 1 0.51306 1 0.39833 1 0.48584 1 0.2709 1 0.10776 1 0.19613 1 0.054969 1 0.10207 1 19p gain 167 (29%) 402 0.068459 1 0.44119 1 0.56813 1 0.11561 1 5.9999e-05 0.0611 0.055509 1 0.20992 1 0.23493 1 0.47124 1 0.369 1 0.33374 1 0.54356 1 0.9811 1 19q gain 160 (28%) 409 0.20809 1 0.76776 1 0.8613 1 0.18401 1 9.9999e-06 0.0104 0.49436 1 0.37973 1 0.20563 1 0.43742 1 0.27215 1 0.67714 1 0.43432 1 0.99073 1 20p gain 282 (50%) 287 0.00144 1 0.00106 1 0.72546 1 0.00075999 0.755 9.9999e-06 0.0104 0.34134 1 0.33176 1 0.00267 1 0.12314 1 0.22353 1 0.00166 1 0.6022 1 0.81316 1 20q gain 320 (56%) 249 9.9999e-06 0.0104 0.00034 0.342 0.67227 1 9.9999e-05 0.101 9.9999e-06 0.0104 0.66156 1 0.078719 1 0.0088899 1 0.13582 1 0.25832 1 0.00496 1 0.67426 1 0.50886 1 21q gain 109 (19%) 460 0.29042 1 0.88052 1 0.96126 1 0.58214 1 0.00136 1 0.45587 1 0.39294 1 0.3372 1 0.84325 1 0.02374 1 0.04309 1 0.099119 1 0.76292 1 22q gain 25 (4%) 544 0.56467 1 0.58455 1 0.90115 1 0.63365 1 0.12638 1 0.36563 1 0.2624 1 0.46353 1 0.5288 1 0.054079 1 0.054849 1 0.091389 1 0.04197 1 xq gain 104 (18%) 465 0.55353 1 0.72827 1 0.83559 1 0.21148 1 0.00236 1 0.27623 1 0.79072 1 0.79664 1 0.82206 1 0.55155 1 0.36377 1 0.4762 1 0.54099 1 1p loss 61 (11%) 508 0.02969 1 0.00011 0.112 0.60547 1 0.23891 1 0.45128 1 0.03513 1 0.20323 1 0.63155 1 0.50921 1 0.44732 1 0.30567 1 0.04076 1 0.13777 1 1q loss 39 (7%) 530 0.095459 1 0.0081399 1 0.121 1 0.70368 1 0.97784 1 0.3524 1 0.52269 1 0.46599 1 1 1 0.97017 1 0.93403 1 0.23981 1 0.70992 1 2p loss 53 (9%) 516 0.93221 1 0.0417 1 0.82298 1 0.44121 1 0.51371 1 0.4824 1 0.89467 1 0.63996 1 0.81589 1 0.72136 1 0.40037 1 0.60138 1 0.77892 1 2q loss 59 (10%) 510 0.96784 1 0.26065 1 0.76105 1 0.14548 1 0.77923 1 0.79502 1 0.94548 1 0.67883 1 0.9277 1 0.67729 1 0.34981 1 0.66528 1 0.2448 1 3p loss 95 (17%) 474 0.04 1 0.00093999 0.926 0.88878 1 0.0060999 1 7.9999e-05 0.0814 0.63425 1 0.27766 1 0.062269 1 0.0064299 1 0.12403 1 0.092139 1 0.92087 1 0.74272 1 3q loss 41 (7%) 528 0.02058 1 0.04674 1 0.30355 1 0.054639 1 0.0059799 1 1 1 0.627 1 0.25214 1 0.076779 1 0.22325 1 0.00223 1 0.28799 1 0.22144 1 4p loss 312 (55%) 257 0.46405 1 0.02765 1 0.28172 1 0.5213 1 0.00436 1 0.14425 1 0.13105 1 0.6124 1 0.43626 1 0.066709 1 0.13041 1 0.054619 1 0.5593 1 4q loss 355 (62%) 214 0.28715 1 0.11418 1 0.45109 1 0.64625 1 0.00155 1 0.10091 1 0.01603 1 0.35588 1 0.35136 1 0.14017 1 0.11331 1 0.02725 1 0.26418 1 5p loss 129 (23%) 440 0.096339 1 0.028 1 0.48638 1 0.083269 1 0.02154 1 0.10751 1 0.077519 1 0.00017 0.172 0.04815 1 0.6652 1 0.087219 1 0.38287 1 0.38752 1 5q loss 218 (38%) 351 5e-04 0.499 0.0017 1 0.77475 1 0.01363 1 0.00082999 0.821 0.04578 1 0.11736 1 0.00089999 0.888 0.14502 1 0.54921 1 0.01057 1 0.30109 1 0.12814 1 6p loss 164 (29%) 405 0.96209 1 0.01888 1 0.36987 1 0.47045 1 0.059449 1 0.70072 1 0.89647 1 0.41208 1 0.04353 1 0.4796 1 0.10064 1 0.31839 1 0.94607 1 6q loss 239 (42%) 330 0.96272 1 0.077069 1 0.43503 1 0.098949 1 0.0178 1 0.62518 1 0.65286 1 0.01864 1 0.02098 1 0.79211 1 0.57165 1 0.92316 1 0.8797 1 7p loss 118 (21%) 451 0.98165 1 0.3556 1 0.43262 1 0.70989 1 0.30211 1 0.59916 1 0.27702 1 0.62078 1 0.58729 1 0.5362 1 0.80363 1 0.77878 1 0.58927 1 7q loss 81 (14%) 488 0.33319 1 0.086299 1 0.34806 1 0.30117 1 0.92031 1 0.8209 1 0.069709 1 0.47578 1 0.31091 1 0.12333 1 0.82132 1 0.5032 1 0.41574 1 8p loss 271 (48%) 298 0.74121 1 0.89213 1 0.24093 1 0.94575 1 0.00357 1 0.11844 1 0.30068 1 0.48261 1 0.70543 1 0.7006 1 0.03757 1 0.80957 1 0.4046 1 8q loss 88 (15%) 481 0.0080899 1 0.00479 1 0.52193 1 0.26289 1 0.00185 1 0.0215 1 0.23338 1 0.00093999 0.926 0.02799 1 0.6621 1 0.1241 1 0.75997 1 0.39801 1 9p loss 255 (45%) 314 0.00321 1 0.0063699 1 0.5116 1 0.18572 1 0.0081199 1 0.79055 1 0.54449 1 0.89783 1 0.10799 1 0.054109 1 0.25583 1 0.063829 1 0.03776 1 9q loss 280 (49%) 289 0.00488 1 0.01415 1 0.22611 1 0.02473 1 9.9999e-06 0.0104 0.59367 1 0.58527 1 0.00456 1 0.051499 1 0.18653 1 0.050159 1 0.25653 1 0.088679 1 10p loss 94 (17%) 475 0.29641 1 1 1 0.26189 1 0.36883 1 0.56227 1 0.60235 1 0.060449 1 0.81391 1 0.63754 1 0.45006 1 0.81228 1 0.42271 1 0.25156 1 10q loss 122 (21%) 447 0.973 1 0.86007 1 0.00395 1 0.32822 1 0.081489 1 0.36486 1 0.37117 1 0.66162 1 0.72449 1 0.76563 1 0.34677 1 0.86983 1 0.059209 1 11p loss 193 (34%) 376 0.23887 1 0.0115 1 0.5459 1 0.30929 1 0.12423 1 0.098249 1 0.61175 1 0.04054 1 0.11193 1 0.47341 1 0.14264 1 0.077199 1 0.096989 1 11q loss 144 (25%) 425 0.35646 1 0.79952 1 0.17917 1 0.53761 1 0.01554 1 0.46216 1 0.7096 1 0.27089 1 0.79777 1 0.51396 1 0.21499 1 0.10206 1 0.26991 1 12p loss 78 (14%) 491 0.003 1 0.01077 1 0.53888 1 0.01034 1 0.00297 1 0.78292 1 0.13264 1 0.31314 1 0.20499 1 0.0093799 1 0.0063699 1 0.00225 1 0.01715 1 12q loss 104 (18%) 465 0.068189 1 0.079279 1 0.75948 1 0.23294 1 0.058699 1 0.26842 1 0.55684 1 0.2437 1 0.19554 1 0.04307 1 0.0484 1 0.11081 1 0.080999 1 13q loss 303 (53%) 266 0.03456 1 0.0067499 1 0.79073 1 0.01302 1 0.0058399 1 0.01037 1 0.3947 1 0.46572 1 0.41825 1 0.25448 1 0.50446 1 0.095989 1 0.16777 1 14q loss 208 (37%) 361 0.21177 1 0.16458 1 0.96832 1 0.49161 1 9.9999e-06 0.0104 0.98045 1 0.61036 1 0.00393 1 0.04664 1 0.80111 1 0.3199 1 0.97468 1 0.77172 1 15q loss 276 (49%) 293 0.00050999 0.508 0.01338 1 8.9999e-05 0.0914 0.00036 0.361 9.9999e-06 0.0104 0.37473 1 0.8137 1 0.066319 1 0.61555 1 0.0066199 1 0.00081999 0.812 0.02992 1 0.00253 1 16p loss 325 (57%) 244 0.32054 1 0.82676 1 0.03754 1 0.31839 1 0.12392 1 0.80442 1 0.20118 1 0.052189 1 0.30933 1 0.079129 1 0.081399 1 0.1124 1 0.19936 1 16q loss 404 (71%) 165 0.56746 1 0.85677 1 0.00361 1 0.097369 1 0.00174 1 0.9479 1 0.24479 1 0.20422 1 0.42588 1 0.072559 1 0.15639 1 0.04789 1 0.17469 1 17p loss 471 (83%) 98 0.27655 1 0.21553 1 0.18038 1 0.1703 1 0.48239 1 0.54966 1 0.23971 1 0.10058 1 0.057969 1 0.47003 1 0.47642 1 0.13652 1 0.41911 1 17q loss 376 (66%) 193 0.060349 1 0.0211 1 0.02613 1 0.01027 1 0.96883 1 0.43406 1 0.33475 1 0.49152 1 0.094709 1 0.057979 1 0.6213 1 0.00013 0.132 0.12112 1 18p loss 234 (41%) 335 0.41633 1 0.89442 1 0.50929 1 0.02245 1 0.23529 1 0.31223 1 0.0062899 1 0.02309 1 0.11344 1 0.83711 1 0.54074 1 0.60993 1 0.77599 1 18q loss 290 (51%) 279 0.31575 1 0.87847 1 0.40653 1 0.97838 1 0.97121 1 0.81231 1 0.04784 1 0.01126 1 0.089849 1 0.97734 1 0.77882 1 0.82225 1 0.78655 1 19p loss 181 (32%) 388 0.98612 1 0.44049 1 0.23602 1 0.0228 1 0.01703 1 0.02079 1 0.85912 1 0.74459 1 0.25452 1 0.79997 1 0.10603 1 0.86093 1 0.6013 1 19q loss 172 (30%) 397 0.82313 1 0.38957 1 0.28439 1 0.0153 1 0.03865 1 0.090979 1 0.61723 1 1 1 0.4831 1 0.36273 1 0.090149 1 0.41819 1 0.79718 1 20p loss 49 (9%) 520 0.49813 1 0.83252 1 0.22057 1 0.68589 1 0.12785 1 0.10249 1 0.20044 1 0.01202 1 0.00054999 0.548 0.00079999 0.793 0.17347 1 0.0063099 1 0.48533 1 20q loss 31 (5%) 538 0.11485 1 0.49805 1 0.03821 1 0.50541 1 0.51213 1 0.04844 1 0.097039 1 0.13241 1 0.01365 1 0.136 1 0.37774 1 0.064829 1 0.20189 1 21q loss 195 (34%) 374 0.8196 1 0.053249 1 0.3856 1 0.17898 1 0.39748 1 0.65068 1 0.43815 1 0.58513 1 0.40849 1 0.68797 1 0.72904 1 0.14447 1 0.42202 1 22q loss 421 (74%) 148 0.0051699 1 0.092929 1 0.03594 1 0.1361 1 0.00034 0.342 0.070519 1 0.0095299 1 0.19105 1 0.12938 1 0.04248 1 0.60851 1 0.0496 1 0.02371 1 xq loss 273 (48%) 296 0.058849 1 0.16396 1 0.28908 1 0.86961 1 0.0058399 1 0.38743 1 0.04531 1 0.49467 1 0.89793 1 0.79868 1 0.40188 1 0.89606 1 0.15868 1