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 1p gain 141 (27%) 374 0.63063 1 1 1 9.9999e-06 0.00946 0.61206 1 0.01332 1 0.02794 1 0.20369 1 0.04841 1 0.0442 1 0.19966 1 0.18287 1 0.096779 1 1q gain 311 (60%) 204 0.12089 1 1 1 0.0134 1 0.0080499 1 0.00102 0.735 0.0066999 1 0.12841 1 0.00031 0.234 0.61788 1 0.059439 1 0.02269 1 0.11798 1 2p gain 155 (30%) 360 0.3011 1 0.24215 1 9.9999e-06 0.00946 9.9999e-06 0.00946 0.81871 1 0.97319 1 3e-05 0.0248 4e-05 0.0326 9.9999e-06 0.00946 0.00049 0.363 0.02671 1 0.00016 0.123 2q gain 140 (27%) 375 0.12587 1 0.28908 1 9.9999e-06 0.00946 2e-05 0.0169 0.91454 1 0.70725 1 0.078609 1 0.01452 1 0.0019 1 0.088999 1 0.0153 1 0.0087699 1 3p gain 41 (8%) 474 NA NA NA NA 0.00186 1 0.0372 1 0.92598 1 0.743 1 3e-05 0.0248 0.00015 0.116 0.11069 1 0.11745 1 0.55731 1 0.01495 1 3q gain 92 (18%) 423 0.056139 1 0.070799 1 5e-05 0.0403 0.00013 0.101 0.48308 1 0.099369 1 9.9999e-06 0.00946 9.9999e-06 0.00946 0.0138 1 0.03279 1 0.14312 1 0.00107 0.766 4p gain 83 (16%) 432 0.87588 1 1 1 2e-05 0.0169 0.15269 1 0.43446 1 0.11053 1 0.04297 1 0.28256 1 0.13576 1 0.23731 1 0.91463 1 0.18035 1 4q gain 47 (9%) 468 0.32977 1 0.58172 1 0.00142 1 0.8403 1 0.68026 1 0.16308 1 0.0075399 1 0.0035 1 0.071029 1 0.27448 1 0.50627 1 0.19771 1 5p gain 274 (53%) 241 0.79802 1 0.36104 1 9.9999e-06 0.00946 0.095189 1 0.050949 1 0.00339 1 0.04139 1 9.9999e-06 0.00946 0.03378 1 0.12571 1 0.65398 1 0.00016 0.123 5q gain 129 (25%) 386 0.19646 1 0.28821 1 0.0095399 1 7.9999e-05 0.0634 0.3725 1 0.31345 1 0.0062499 1 0.02668 1 0.15841 1 0.0099399 1 0.42907 1 0.072059 1 6p gain 142 (28%) 373 0.35328 1 0.087889 1 0.00034 0.256 9.9999e-06 0.00946 0.03097 1 0.85563 1 0.076059 1 0.0089499 1 0.061519 1 0.0073199 1 0.64249 1 0.0098499 1 6q gain 60 (12%) 455 1 1 1 1 0.04349 1 0.00335 1 0.43103 1 0.84638 1 0.16302 1 0.01425 1 0.0092199 1 0.0084199 1 0.98054 1 0.25597 1 7p gain 264 (51%) 251 0.85316 1 0.5382 1 9.9999e-06 0.00946 0.0015 1 0.00076999 0.561 0.0077699 1 9.9999e-06 0.00946 9.9999e-06 0.00946 9.9999e-06 0.00946 0.00035 0.264 0.00016 0.123 9.9999e-06 0.00946 7q gain 217 (42%) 298 0.48089 1 0.31046 1 9.9999e-06 0.00946 0.0097499 1 0.064429 1 0.053789 1 9.9999e-06 0.00946 9.9999e-06 0.00946 0.00308 1 0.00125 0.891 0.14945 1 2e-05 0.0169 8p gain 126 (24%) 389 0.15027 1 0.25431 1 9.9999e-06 0.00946 0.095219 1 0.59026 1 0.25274 1 0.00071999 0.526 8.9999e-05 0.0709 0.42493 1 0.83909 1 0.39472 1 0.47824 1 8q gain 246 (48%) 269 0.02365 1 0.04739 1 9.9999e-06 0.00946 9.9999e-06 0.00946 0.64895 1 0.79273 1 9.9999e-06 0.00946 9.9999e-06 0.00946 9.9999e-06 0.00946 0.00362 1 0.0149 1 5.9999e-05 0.0481 9p gain 45 (9%) 470 NA NA NA NA 0.00129 0.917 0.13745 1 0.93908 1 0.27707 1 0.00024 0.182 0.00473 1 0.15024 1 0.63913 1 0.095249 1 0.13805 1 9q gain 34 (7%) 481 NA NA NA NA 0.0306 1 0.45188 1 0.77312 1 0.70461 1 0.077239 1 0.11557 1 0.19369 1 0.80471 1 0.27039 1 0.13464 1 10p gain 112 (22%) 403 0.23589 1 0.29758 1 9.9999e-06 0.00946 9.9999e-06 0.00946 0.0314 1 0.16879 1 5e-05 0.0403 9.9999e-06 0.00946 0.00043 0.321 0.00018 0.137 0.30565 1 0.00093999 0.683 10q gain 78 (15%) 437 NA NA NA NA 0.00229 1 2e-05 0.0169 0.35999 1 0.19506 1 0.00049 0.363 3e-05 0.0248 0.1467 1 0.04155 1 0.98387 1 0.064029 1 11p gain 96 (19%) 419 0.00059999 0.442 0.00097999 0.71 2e-05 0.0169 0.32706 1 0.00097999 0.71 0.678 1 0.10376 1 0.00045 0.335 0.00094999 0.69 9.9999e-06 0.00946 0.39483 1 0.02787 1 11q gain 118 (23%) 397 0.01059 1 0.01716 1 9.9999e-06 0.00946 0.01343 1 0.0085399 1 0.7729 1 0.00273 1 0.00032 0.242 0.00013 0.101 3e-05 0.0248 0.46464 1 0.00311 1 12p gain 137 (27%) 378 0.22024 1 0.04776 1 9.9999e-06 0.00946 2e-05 0.0169 0.0080199 1 0.35667 1 9.9999e-06 0.00946 9.9999e-06 0.00946 9.9999e-06 0.00946 9.9999e-06 0.00946 0.37075 1 2e-05 0.0169 12q gain 130 (25%) 385 0.21994 1 0.13668 1 9.9999e-06 0.00946 9.9999e-06 0.00946 0.02321 1 0.19926 1 9.9999e-06 0.00946 9.9999e-06 0.00946 9.9999e-06 0.00946 9.9999e-06 0.00946 0.22614 1 9.9999e-06 0.00946 13q gain 43 (8%) 472 0.41315 1 0.54349 1 0.97761 1 0.0069099 1 0.04263 1 0.03415 1 0.059299 1 0.12786 1 0.8295 1 0.36264 1 0.43102 1 0.53677 1 14q gain 126 (24%) 389 0.80446 1 0.84641 1 9.9999e-06 0.00946 0.00315 1 0.43288 1 0.1264 1 0.00016 0.123 5e-05 0.0403 6.9999e-05 0.0557 0.00171 1 0.14758 1 0.15271 1 15q gain 39 (8%) 476 0.19278 1 0.14657 1 0.79825 1 0.13738 1 0.27202 1 0.34872 1 9.9999e-06 0.00946 9.9999e-06 0.00946 0.73695 1 0.66133 1 0.14506 1 0.90159 1 16p gain 136 (26%) 379 0.53149 1 0.33624 1 0.0092399 1 0.01288 1 0.086349 1 0.02138 1 0.11149 1 0.00484 1 0.00259 1 0.72063 1 0.02652 1 0.10113 1 16q gain 102 (20%) 413 0.43914 1 0.15436 1 0.0073599 1 0.082869 1 0.01014 1 0.0268 1 0.45029 1 0.02192 1 0.00147 1 0.10999 1 0.16032 1 0.1302 1 17p gain 85 (17%) 430 0.45438 1 0.68652 1 3e-05 0.0248 0.061779 1 0.96048 1 0.69094 1 0.01242 1 0.03837 1 0.0041 1 0.062959 1 0.66094 1 0.38726 1 17q gain 191 (37%) 324 0.30588 1 0.87646 1 9.9999e-06 0.00946 4e-05 0.0326 0.29705 1 0.27227 1 4e-05 0.0326 9.9999e-06 0.00946 0.00012 0.0935 4e-05 0.0326 0.39519 1 0.00029 0.22 18p gain 93 (18%) 422 0.87699 1 0.63733 1 4e-05 0.0326 9.9999e-06 0.00946 0.18308 1 0.89439 1 0.02228 1 0.00327 1 0.02486 1 0.01784 1 0.14953 1 0.00025 0.189 18q gain 71 (14%) 444 0.59515 1 0.14659 1 9.9999e-06 0.00946 9.9999e-06 0.00946 0.071389 1 0.23367 1 2e-05 0.0169 0.00059999 0.442 0.01273 1 0.00258 1 0.04394 1 0.0031 1 19p gain 33 (6%) 482 0.19184 1 0.04183 1 0.41612 1 0.73484 1 0.70179 1 0.77391 1 0.99333 1 0.74605 1 0.43726 1 0.85753 1 0.90528 1 0.47536 1 19q gain 76 (15%) 439 0.04971 1 0.04002 1 0.00333 1 0.01682 1 0.87191 1 0.92712 1 0.21634 1 0.01432 1 0.17282 1 0.47802 1 0.42285 1 0.00228 1 20p gain 173 (34%) 342 0.070109 1 0.13928 1 0.00351 1 0.00012 0.0935 0.16826 1 0.51493 1 0.00037 0.278 9.9999e-06 0.00946 5.9999e-05 0.0481 0.00050999 0.376 0.063199 1 0.00039 0.292 20q gain 199 (39%) 316 0.00426 1 0.0089199 1 9.9999e-06 0.00946 9.9999e-06 0.00946 0.10882 1 0.2494 1 2e-05 0.0169 9.9999e-06 0.00946 2e-05 0.0169 0.00012 0.0935 0.1607 1 9.9999e-06 0.00946 21q gain 97 (19%) 418 0.53882 1 0.26404 1 0.0051499 1 0.67313 1 0.43141 1 0.02215 1 0.02981 1 6.9999e-05 0.0557 0.68153 1 0.74277 1 0.45644 1 0.40616 1 22q gain 62 (12%) 453 0.10974 1 0.11929 1 0.00421 1 0.9251 1 0.10757 1 0.28203 1 0.17669 1 0.096429 1 0.44945 1 0.56427 1 0.2782 1 0.53804 1 xq gain 77 (15%) 438 0.65782 1 0.24726 1 0.00035 0.264 0.10029 1 0.86876 1 0.15147 1 0.051589 1 0.02007 1 0.04478 1 0.15757 1 0.26849 1 0.069169 1 1p loss 82 (16%) 433 0.081149 1 0.12602 1 9.9999e-06 0.00946 0.00128 0.911 0.13255 1 0.135 1 0.00015 0.116 9.9999e-06 0.00946 0.22578 1 0.03153 1 0.13968 1 0.26319 1 1q loss 27 (5%) 488 NA NA NA NA 0.13334 1 0.01941 1 0.10616 1 0.02599 1 0.072509 1 0.17309 1 0.83235 1 0.49842 1 0.92624 1 0.14622 1 2p loss 23 (4%) 492 0.75093 1 0.58044 1 0.064529 1 0.1729 1 0.54928 1 0.98898 1 0.97359 1 0.90893 1 0.04483 1 0.49122 1 0.25319 1 0.12522 1 2q loss 24 (5%) 491 NA NA NA NA 0.00065999 0.484 0.04778 1 0.4634 1 0.44207 1 0.2924 1 0.39024 1 0.13976 1 0.66471 1 0.6324 1 0.22285 1 3p loss 213 (41%) 302 0.34225 1 0.11295 1 4e-05 0.0326 5.9999e-05 0.0481 0.51714 1 0.32125 1 0.04058 1 9.9999e-06 0.00946 0.01225 1 0.0098499 1 0.25647 1 0.01798 1 3q loss 146 (28%) 369 0.55328 1 0.14401 1 0.0070499 1 0.01389 1 0.80592 1 0.49114 1 0.074119 1 0.00103 0.742 0.2326 1 0.41211 1 0.38863 1 0.86626 1 4p loss 120 (23%) 395 0.18372 1 0.38245 1 3e-05 0.0248 9.9999e-06 0.00946 0.52259 1 0.69292 1 9.9999e-05 0.0786 2e-05 0.0169 2e-05 0.0169 9.9999e-06 0.00946 0.19134 1 9.9999e-05 0.0786 4q loss 136 (26%) 379 0.00045 0.335 0.0067799 1 9.9999e-06 0.00946 9.9999e-06 0.00946 0.27298 1 0.33695 1 9.9999e-06 0.00946 9.9999e-06 0.00946 9.9999e-06 0.00946 9.9999e-06 0.00946 0.057929 1 2e-05 0.0169 5p loss 44 (9%) 471 0.59675 1 0.30817 1 0.19828 1 0.0092199 1 0.087409 1 0.23956 1 0.0070599 1 0.00179 1 0.11425 1 0.00178 1 0.62404 1 0.00164 1 5q loss 141 (27%) 374 0.064019 1 0.03504 1 9.9999e-06 0.00946 9.9999e-06 0.00946 0.065419 1 0.054409 1 2e-05 0.0169 9.9999e-05 0.0786 9.9999e-06 0.00946 9.9999e-06 0.00946 0.46665 1 2e-05 0.0169 6p loss 105 (20%) 410 0.01292 1 0.00442 1 0.0163 1 0.21916 1 0.52171 1 0.2641 1 0.154 1 0.25411 1 0.33598 1 0.02356 1 0.73444 1 0.18071 1 6q loss 217 (42%) 298 0.24669 1 0.54158 1 0.0083199 1 0.00011 0.086 0.20034 1 0.23488 1 0.13094 1 0.00022 0.167 0.67497 1 0.00136 0.963 0.7441 1 0.17333 1 7p loss 35 (7%) 480 1 1 1 1 0.00212 1 0.01119 1 0.29068 1 0.99303 1 0.0053399 1 0.00175 1 0.090609 1 0.14123 1 0.064959 1 0.079139 1 7q loss 42 (8%) 473 0.8051 1 0.25647 1 0.058639 1 0.02009 1 0.88912 1 0.96085 1 0.11139 1 0.03752 1 0.38797 1 0.14305 1 0.7283 1 0.82491 1 8p loss 202 (39%) 313 0.13149 1 0.079709 1 9.9999e-06 0.00946 0.0098899 1 0.2657 1 0.0064899 1 5.9999e-05 0.0481 9.9999e-06 0.00946 0.0055999 1 0.01515 1 0.0076299 1 0.00305 1 8q loss 56 (11%) 459 NA NA NA NA 0.03103 1 0.66423 1 0.49173 1 0.24875 1 0.23038 1 0.077759 1 0.53536 1 0.5991 1 0.14877 1 0.25443 1 9p loss 264 (51%) 251 0.051619 1 0.60067 1 0.00049 0.363 0.02111 1 0.81338 1 0.056679 1 0.00096999 0.703 5.9999e-05 0.0481 0.01724 1 0.00060999 0.448 0.19433 1 0.068399 1 9q loss 248 (48%) 267 0.49984 1 0.90197 1 0.00011 0.086 0.00022 0.167 0.54916 1 0.086609 1 0.13482 1 0.00037 0.278 0.00237 1 2e-05 0.0169 0.1739 1 0.00457 1 10p loss 110 (21%) 405 0.81523 1 0.78825 1 9.9999e-06 0.00946 0.03302 1 0.062359 1 0.01695 1 5.9999e-05 0.0481 9.9999e-06 0.00946 0.00314 1 0.2774 1 0.0243 1 0.03238 1 10q loss 132 (26%) 383 0.81636 1 0.78852 1 4e-05 0.0326 0.0307 1 0.02951 1 0.03019 1 0.00136 0.963 9.9999e-06 0.00946 0.00344 1 0.0061299 1 0.01377 1 0.00119 0.85 11p loss 112 (22%) 403 0.052689 1 0.12633 1 9.9999e-06 0.00946 0.0081499 1 0.70662 1 0.75514 1 0.00276 1 0.0070499 1 0.02514 1 0.04184 1 0.20166 1 0.04212 1 11q loss 90 (17%) 425 0.84069 1 0.4823 1 0.00069999 0.512 0.01433 1 0.30549 1 0.2314 1 0.00104 0.746 0.0063899 1 0.04227 1 0.03021 1 0.03643 1 0.21325 1 12p loss 113 (22%) 402 0.63009 1 0.88106 1 0.00101 0.729 0.24358 1 0.03209 1 0.14964 1 0.0060799 1 2e-04 0.152 0.10626 1 0.34664 1 0.98877 1 0.15346 1 12q loss 99 (19%) 416 0.55466 1 0.42459 1 4e-05 0.0326 0.084419 1 0.20076 1 0.082249 1 0.00129 0.917 7.9999e-05 0.0634 0.095649 1 0.22664 1 0.90606 1 0.21256 1 13q loss 252 (49%) 263 0.10626 1 0.62531 1 9.9999e-06 0.00946 0.054049 1 0.00333 1 0.01629 1 9.9999e-06 0.00946 9.9999e-06 0.00946 0.0099799 1 0.02249 1 0.23412 1 0.00335 1 14q loss 115 (22%) 400 0.92894 1 0.41125 1 0.02022 1 0.44222 1 0.33118 1 0.10726 1 0.03083 1 0.00463 1 0.02382 1 0.17021 1 0.19115 1 0.04775 1 15q loss 242 (47%) 273 0.10096 1 0.28151 1 9.9999e-06 0.00946 0.00013 0.101 0.053159 1 0.0054699 1 9.9999e-06 0.00946 9.9999e-06 0.00946 3e-05 0.0248 0.00461 1 0.30816 1 9.9999e-06 0.00946 16p loss 111 (22%) 404 0.452 1 0.48256 1 9.9999e-06 0.00946 6.9999e-05 0.0557 0.7442 1 0.00301 1 7.9999e-05 0.0634 0.00103 0.742 0.00358 1 0.00433 1 0.50433 1 0.00225 1 16q loss 140 (27%) 375 0.55154 1 0.6259 1 9.9999e-06 0.00946 3e-05 0.0248 0.1921 1 0.03801 1 9.9999e-06 0.00946 3e-05 0.0248 0.01043 1 0.00282 1 0.87274 1 0.00068999 0.505 17p loss 215 (42%) 300 0.55063 1 0.36203 1 9.9999e-06 0.00946 9.9999e-05 0.0786 0.0265 1 0.0090199 1 0.00103 0.742 0.00132 0.936 0.29704 1 0.12842 1 0.7698 1 0.01657 1 17q loss 58 (11%) 457 0.29309 1 0.47351 1 0.00085999 0.626 0.084189 1 0.0088499 1 0.073359 1 0.13762 1 0.50612 1 0.83621 1 0.16089 1 0.97957 1 0.80705 1 18p loss 181 (35%) 334 0.4361 1 0.45433 1 9.9999e-06 0.00946 0.60842 1 0.02286 1 0.02105 1 0.01926 1 0.00234 1 0.04008 1 0.37536 1 0.97335 1 0.59609 1 18q loss 216 (42%) 299 0.51733 1 0.42541 1 9.9999e-06 0.00946 0.23047 1 0.00409 1 3e-05 0.0248 0.00011 0.086 0.00013 0.101 0.04275 1 0.63475 1 0.59397 1 0.16729 1 19p loss 244 (47%) 271 0.81658 1 1 1 9.9999e-06 0.00946 9.9999e-06 0.00946 0.8774 1 0.38946 1 9.9999e-06 0.00946 9.9999e-06 0.00946 9.9999e-06 0.00946 9.9999e-06 0.00946 0.03116 1 0.00157 1 19q loss 159 (31%) 356 0.34403 1 0.4614 1 9.9999e-06 0.00946 0.00012 0.0935 0.26674 1 0.59998 1 0.00015 0.116 5e-05 0.0403 5e-05 0.0403 2e-05 0.0169 0.28407 1 0.0091099 1 20p loss 117 (23%) 398 0.22113 1 0.24104 1 7.9999e-05 0.0634 0.00039 0.292 0.00056999 0.42 0.00263 1 0.0066499 1 0.0011 0.786 0.95131 1 0.95889 1 0.25208 1 0.01782 1 20q loss 69 (13%) 446 0.2562 1 0.49763 1 0.45616 1 0.61952 1 0.10533 1 0.21638 1 0.52944 1 0.47753 1 0.49732 1 0.63033 1 0.092799 1 0.8971 1 21q loss 165 (32%) 350 0.18464 1 0.14455 1 9.9999e-06 0.00946 0.00048 0.356 0.01461 1 0.04799 1 9.9999e-06 0.00946 9.9999e-06 0.00946 2e-05 0.0169 8.9999e-05 0.0709 0.59139 1 0.00044 0.328 22q loss 220 (43%) 295 0.12648 1 0.16756 1 9.9999e-06 0.00946 9.9999e-06 0.00946 0.88967 1 0.62011 1 9.9999e-06 0.00946 9.9999e-06 0.00946 6.9999e-05 0.0557 3e-05 0.0248 0.11168 1 0.00016 0.123 xq loss 68 (13%) 447 0.17192 1 0.25417 1 0.00046 0.342 0.00477 1 0.39866 1 0.81292 1 0.32432 1 0.58014 1 0.20939 1 0.13025 1 0.84038 1 0.45497 1