Clinical Features 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 1p gain 68 (13%) 443 8.9999e-05 0.0626 0.0062999 1 0.9692 1 0.757 1 0.86133 1 0.87199 1 0.69869 1 0.0079699 1 0.8515 1 0.63449 1 1q gain 117 (23%) 394 2e-05 0.0145 9.9999e-06 0.008 0.2902 1 0.769 1 0.00017 0.115 0.00017 0.115 0.00164 1 0.00414 1 0.0056199 1 9.9999e-05 0.0694 2p gain 90 (18%) 421 9.9999e-06 0.008 9.9999e-06 0.008 0.04527 1 0.42291 1 0.051239 1 0.00209 1 0.12667 1 0.0086799 1 0.099959 1 9.9999e-06 0.008 2q gain 69 (14%) 442 9.9999e-06 0.008 9.9999e-06 0.008 0.52837 1 0.76398 1 0.062439 1 0.00035 0.232 0.24325 1 0.01483 1 0.14203 1 5e-05 0.0353 3p gain 79 (15%) 432 0.0086799 1 0.00017 0.115 0.065269 1 0.75594 1 0.00116 0.74 0.04667 1 0.0091499 1 0.17798 1 0.04337 1 0.21275 1 3q gain 249 (49%) 262 9.9999e-06 0.008 9.9999e-06 0.008 0.68582 1 0.23046 1 0.00072999 0.472 0.0244 1 0.00107 0.684 0.6377 1 0.078639 1 0.0059699 1 4p gain 39 (8%) 472 0.00215 1 0.00025 0.167 0.59775 1 0.46001 1 0.051189 1 0.14877 1 0.11982 1 0.44161 1 0.46765 1 0.61054 1 4q gain 35 (7%) 476 0.10904 1 0.20363 1 1 1 0.76917 1 0.62187 1 0.067559 1 0.9272 1 0.87753 1 0.94535 1 0.93996 1 5p gain 195 (38%) 316 9.9999e-06 0.008 0.00080999 0.522 0.96092 1 0.83341 1 0.083649 1 0.44481 1 0.61202 1 0.03124 1 0.93472 1 0.63136 1 5q gain 65 (13%) 446 0.03241 1 0.58116 1 0.61682 1 0.88777 1 0.78191 1 0.75215 1 0.72813 1 0.68714 1 0.46688 1 0.63449 1 6p gain 80 (16%) 431 9.9999e-06 0.008 0.00245 1 0.49977 1 0.74617 1 0.66267 1 0.03771 1 0.57426 1 0.11457 1 0.25097 1 0.55349 1 6q gain 61 (12%) 450 2e-05 0.0145 0.03778 1 0.19409 1 0.073039 1 0.077379 1 0.03177 1 0.12377 1 0.85143 1 0.057499 1 0.42527 1 7p gain 180 (35%) 331 9.9999e-06 0.008 9.9999e-06 0.008 0.63206 1 0.50355 1 0.27458 1 0.11928 1 0.67871 1 9.9999e-06 0.008 0.45596 1 4e-04 0.264 7q gain 123 (24%) 388 9.9999e-06 0.008 9.9999e-06 0.008 0.17566 1 0.63386 1 0.47454 1 0.82181 1 0.0076899 1 0.00035 0.232 0.49283 1 0.00214 1 8p gain 148 (29%) 363 0.00169 1 0.21707 1 0.58944 1 0.63843 1 0.35489 1 0.17028 1 0.67689 1 0.47915 1 0.4656 1 0.68623 1 8q gain 304 (59%) 207 9.9999e-06 0.008 2e-05 0.0145 0.079569 1 0.88656 1 0.1171 1 0.00215 1 0.083149 1 0.0071199 1 0.0083199 1 0.0056899 1 9p gain 102 (20%) 409 9.9999e-06 0.008 3e-05 0.0214 0.50718 1 0.097829 1 0.00131 0.823 0.01132 1 0.0081499 1 0.02545 1 0.058399 1 0.04341 1 9q gain 136 (27%) 375 9.9999e-06 0.008 0.0047 1 0.12834 1 0.25202 1 0.25419 1 0.02765 1 0.65475 1 0.12718 1 0.28108 1 0.37737 1 10p gain 40 (8%) 471 0.057999 1 3e-05 0.0214 0.58816 1 0.065739 1 0.04018 1 0.00012 0.0826 0.04305 1 0.01424 1 0.88514 1 0.0227 1 10q gain 34 (7%) 477 0.00064999 0.421 0.21649 1 0.099169 1 0.39871 1 0.62233 1 0.16059 1 0.59141 1 0.10518 1 0.84816 1 0.03619 1 11p gain 65 (13%) 446 2e-05 0.0145 2e-05 0.0145 0.94161 1 0.57816 1 0.20466 1 0.0153 1 0.054249 1 0.19781 1 0.19124 1 0.0065399 1 11q gain 70 (14%) 441 0.00019 0.128 5e-05 0.0353 0.52958 1 0.58105 1 0.23404 1 0.01293 1 0.2982 1 0.071509 1 0.91478 1 0.084169 1 12p gain 143 (28%) 368 9.9999e-06 0.008 9.9999e-06 0.008 0.01585 1 0.82302 1 0.01627 1 0.00184 1 0.066069 1 0.03438 1 0.50175 1 0.01118 1 12q gain 87 (17%) 424 9.9999e-06 0.008 0.00122 0.771 0.114 1 0.18532 1 0.082929 1 0.00317 1 0.57705 1 0.35496 1 0.7564 1 0.40237 1 13q gain 56 (11%) 455 9.9999e-06 0.008 0.00251 1 0.59355 1 0.73538 1 0.01368 1 0.01907 1 0.2511 1 0.01247 1 0.27162 1 0.0311 1 14q gain 148 (29%) 363 9.9999e-06 0.008 9.9999e-06 0.008 0.21801 1 0.096689 1 0.01402 1 0.00058999 0.385 0.01743 1 2e-05 0.0145 0.0076799 1 9.9999e-05 0.0694 15q gain 71 (14%) 440 0.081719 1 0.0084299 1 0.38612 1 0.58663 1 0.21619 1 0.56451 1 0.97331 1 0.00331 1 0.83761 1 0.29081 1 16p gain 104 (20%) 407 9.9999e-06 0.008 9.9999e-06 0.008 0.33028 1 0.17742 1 0.42535 1 0.0028 1 0.72569 1 0.00011 0.0758 0.56982 1 0.03095 1 16q gain 104 (20%) 407 9.9999e-06 0.008 9.9999e-06 0.008 0.50419 1 0.89285 1 0.15407 1 0.00282 1 0.27074 1 4e-05 0.0284 0.02511 1 0.01597 1 17p gain 66 (13%) 445 9.9999e-06 0.008 4e-05 0.0284 0.60256 1 0.90232 1 0.0079499 1 0.01323 1 0.090009 1 0.0095299 1 0.27128 1 0.02094 1 17q gain 84 (16%) 427 2e-05 0.0145 0.00052999 0.347 0.58276 1 0.67713 1 0.1279 1 0.03214 1 0.48741 1 0.01397 1 0.97445 1 0.04161 1 18p gain 119 (23%) 392 9.9999e-06 0.008 9.9999e-06 0.008 0.33122 1 0.31921 1 0.37391 1 9.9999e-06 0.008 0.66344 1 0.01485 1 0.80392 1 0.00101 0.646 18q gain 48 (9%) 463 0.00219 1 9.9999e-06 0.008 0.01521 1 0.02835 1 3e-04 0.199 2e-05 0.0145 5.9999e-05 0.0421 0.21057 1 0.01201 1 0.0080999 1 19p gain 53 (10%) 458 0.0016 1 9.9999e-06 0.008 0.087459 1 0.76988 1 0.01186 1 0.00017 0.115 0.00028 0.186 0.16854 1 0.51898 1 0.3147 1 19q gain 74 (14%) 437 0.03778 1 5.9999e-05 0.0421 0.96147 1 0.7867 1 0.01688 1 0.00087999 0.565 0.00060999 0.396 0.30017 1 0.82741 1 0.2012 1 20p gain 188 (37%) 323 9.9999e-06 0.008 9.9999e-06 0.008 0.95963 1 0.81279 1 0.10416 1 0.02526 1 0.20317 1 0.0079099 1 0.01893 1 0.04726 1 20q gain 198 (39%) 313 9.9999e-06 0.008 9.9999e-06 0.008 0.84196 1 0.8728 1 0.11137 1 0.00068999 0.446 0.16866 1 0.00343 1 0.0024 1 0.0067199 1 21q gain 35 (7%) 476 0.04565 1 0.03273 1 0.01433 1 0.12854 1 0.0071899 1 0.0089299 1 0.1039 1 0.21441 1 0.72866 1 0.33026 1 22q gain 110 (22%) 401 9.9999e-06 0.008 9.9999e-06 0.008 0.15254 1 0.518 1 0.27302 1 0.4179 1 0.00117 0.744 0.04009 1 0.00246 1 4e-05 0.0284 xq gain 87 (17%) 424 9.9999e-06 0.008 0.00189 1 0.25242 1 0.82675 1 0.42627 1 0.30294 1 0.061439 1 0.48155 1 0.64498 1 0.062189 1 1p loss 52 (10%) 459 0.00013 0.0893 9.9999e-06 0.008 0.01887 1 0.20306 1 0.00345 1 0.0061899 1 0.33657 1 0.13565 1 0.21343 1 0.0025 1 1q loss 35 (7%) 476 0.055469 1 0.1346 1 0.78015 1 0.48813 1 0.099109 1 0.01802 1 0.03601 1 0.00081999 0.527 0.053289 1 0.77917 1 2p loss 33 (6%) 478 0.087789 1 0.0073599 1 0.15725 1 0.04504 1 0.10568 1 0.67058 1 0.03384 1 0.84936 1 0.01136 1 0.96517 1 2q loss 42 (8%) 469 0.9303 1 0.056719 1 0.83871 1 0.62383 1 0.74495 1 0.57919 1 0.19729 1 0.9156 1 0.02805 1 0.50663 1 3p loss 287 (56%) 224 9.9999e-06 0.008 9.9999e-06 0.008 0.8295 1 0.67771 1 0.01396 1 9.9999e-05 0.0694 0.1432 1 0.00015 0.102 0.73245 1 4e-05 0.0284 3q loss 60 (12%) 451 0.01327 1 0.23787 1 0.25889 1 0.76658 1 0.60182 1 0.16943 1 0.95253 1 0.0259 1 0.47191 1 0.38547 1 4p loss 186 (36%) 325 9.9999e-06 0.008 9.9999e-06 0.008 0.039 1 0.49573 1 0.00016 0.109 0.00013 0.0893 0.38803 1 0.0032 1 0.02763 1 9.9999e-06 0.008 4q loss 144 (28%) 367 9.9999e-06 0.008 9.9999e-06 0.008 0.47219 1 0.22217 1 0.0079499 1 0.00059999 0.391 0.23946 1 0.01493 1 0.078599 1 6.9999e-05 0.0489 5p loss 50 (10%) 461 2e-05 0.0145 9.9999e-06 0.008 0.41481 1 0.38462 1 0.69036 1 0.10597 1 0.78255 1 0.13606 1 0.12843 1 0.21708 1 5q loss 160 (31%) 351 9.9999e-06 0.008 9.9999e-06 0.008 0.2417 1 0.77335 1 0.20615 1 9.9999e-06 0.008 0.80524 1 2e-05 0.0145 0.73294 1 3e-05 0.0214 6p loss 67 (13%) 444 0.00038 0.251 0.00118 0.748 0.0281 1 0.12837 1 0.02984 1 0.03662 1 0.33422 1 0.48867 1 0.26086 1 0.060459 1 6q loss 67 (13%) 444 0.064179 1 0.0043 1 0.12813 1 0.1237 1 0.78167 1 0.5718 1 0.66488 1 0.12022 1 0.34589 1 0.55872 1 7p loss 28 (5%) 483 0.01992 1 0.02529 1 0.0097099 1 0.63039 1 0.50591 1 0.04653 1 0.30646 1 0.96887 1 0.081089 1 0.75372 1 7q loss 42 (8%) 469 0.19815 1 0.30889 1 0.53112 1 1 1 0.32608 1 0.12834 1 0.04337 1 0.67722 1 0.85667 1 0.47057 1 8p loss 184 (36%) 327 9.9999e-06 0.008 9.9999e-06 0.008 0.55086 1 0.67728 1 0.03685 1 0.00269 1 0.03087 1 0.00023 0.154 0.00075999 0.49 0.00058999 0.385 8q loss 30 (6%) 481 0.075659 1 0.28191 1 0.75662 1 0.8741 1 0.69535 1 0.084529 1 0.20925 1 0.093859 1 0.76693 1 0.60293 1 9p loss 176 (34%) 335 9.9999e-06 0.008 9.9999e-06 0.008 0.70033 1 0.14609 1 0.30293 1 9.9999e-05 0.0694 0.40584 1 8.9999e-05 0.0626 0.33499 1 9.9999e-06 0.008 9q loss 83 (16%) 428 9.9999e-06 0.008 9.9999e-06 0.008 0.99381 1 1 1 0.63525 1 0.34854 1 0.81444 1 0.01029 1 0.13385 1 0.00129 0.813 10p loss 151 (30%) 360 5.9999e-05 0.0421 0.00336 1 0.32033 1 0.23065 1 0.051089 1 0.081499 1 0.096929 1 0.10242 1 0.24921 1 0.03835 1 10q loss 109 (21%) 402 0.00014 0.0958 0.00025 0.167 0.20497 1 0.30212 1 0.01549 1 0.01045 1 0.02072 1 0.10637 1 0.24941 1 0.01821 1 11p loss 134 (26%) 377 9.9999e-06 0.008 2e-04 0.134 0.33492 1 0.28073 1 0.0050499 1 0.071979 1 0.0058999 1 0.36071 1 0.39705 1 0.01326 1 11q loss 164 (32%) 347 9.9999e-05 0.0694 9.9999e-06 0.008 0.25688 1 0.03317 1 0.00491 1 4e-05 0.0284 0.26549 1 0.68549 1 0.39117 1 0.086609 1 12p loss 36 (7%) 475 0.6564 1 0.056849 1 0.64247 1 0.12493 1 0.86114 1 0.87452 1 1 1 0.62724 1 0.3712 1 0.72572 1 12q loss 32 (6%) 479 0.01506 1 0.00179 1 0.87071 1 0.14751 1 0.51162 1 0.93038 1 0.97208 1 0.43354 1 0.19544 1 0.47489 1 13q loss 162 (32%) 349 9.9999e-06 0.008 9.9999e-06 0.008 0.38271 1 0.82745 1 0.00307 1 0.00117 0.744 0.03768 1 0.34408 1 0.33266 1 0.00062999 0.409 14q loss 54 (11%) 457 0.0056099 1 0.00119 0.753 0.03533 1 0.52873 1 5e-05 0.0353 0.00016 0.109 0.00412 1 0.21251 1 0.23809 1 0.0092999 1 15q loss 98 (19%) 413 9.9999e-06 0.008 0.25601 1 0.62828 1 0.34748 1 0.11977 1 0.28744 1 0.72451 1 0.18129 1 0.54038 1 0.10935 1 16p loss 60 (12%) 451 0.00042 0.276 0.01352 1 0.86441 1 0.080509 1 0.0062499 1 0.055529 1 0.96737 1 0.42022 1 0.84172 1 0.5877 1 16q loss 78 (15%) 433 0.0054799 1 9.9999e-06 0.008 0.47856 1 0.2417 1 9.9999e-06 0.008 9.9999e-06 0.008 0.00258 1 0.01738 1 0.00056999 0.373 0.00094999 0.609 17p loss 103 (20%) 408 0.00013 0.0893 0.00192 1 0.38843 1 0.7597 1 0.52608 1 0.11786 1 0.54425 1 0.01455 1 0.2426 1 0.56043 1 17q loss 34 (7%) 477 0.00116 0.74 0.11169 1 0.90188 1 0.50385 1 0.444 1 0.85283 1 0.92215 1 0.68525 1 0.97174 1 0.23695 1 18p loss 101 (20%) 410 0.02126 1 2e-05 0.0145 0.54489 1 0.32823 1 0.27127 1 0.11357 1 0.64449 1 0.0078599 1 0.84796 1 0.14454 1 18q loss 208 (41%) 303 9.9999e-06 0.008 9.9999e-06 0.008 0.31524 1 0.45263 1 0.00218 1 9.9999e-06 0.008 0.0017 1 9.9999e-06 0.008 0.14971 1 5e-05 0.0353 19p loss 93 (18%) 418 0.00022 0.147 7.9999e-05 0.0558 0.71229 1 0.71338 1 0.02268 1 0.0070099 1 0.04088 1 0.00303 1 0.65803 1 0.26577 1 19q loss 82 (16%) 429 0.00015 0.102 5e-05 0.0353 0.12819 1 0.51891 1 0.20491 1 0.087829 1 0.35085 1 0.0116 1 0.79773 1 0.61029 1 20p loss 46 (9%) 465 4e-04 0.264 0.01565 1 0.4729 1 0.76471 1 0.081769 1 0.31458 1 0.32845 1 0.0084999 1 0.0017 1 0.091149 1 20q loss 28 (5%) 483 0.0090599 1 0.0064199 1 0.2257 1 0.58653 1 0.02302 1 0.01808 1 0.02645 1 0.02032 1 0.00025 0.167 0.02716 1 21q loss 179 (35%) 332 9.9999e-06 0.008 9.9999e-06 0.008 0.57215 1 0.98204 1 0.0324 1 0.03834 1 0.53373 1 2e-04 0.134 0.7326 1 0.00019 0.128 22q loss 72 (14%) 439 0.00354 1 0.00127 0.801 0.66645 1 0.65764 1 0.00129 0.813 0.15662 1 0.00049 0.321 0.1797 1 0.00339 1 0.00015 0.102 xq loss 82 (16%) 429 0.00016 0.109 2e-05 0.0145 0.087099 1 0.00215 1 0.03038 1 0.0053199 1 0.01484 1 0.19565 1 0.16895 1 0.097179 1