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 16 (3%) 476 9.9999e-06 0.00733 0.02709 1 0.04064 1 0.33747 1 0.0089499 1 0.056389 1 0.31297 1 0.04173 1 0.84896 1 0.17455 1 1q gain 26 (5%) 466 9.9999e-06 0.00733 0.0068499 1 0.02245 1 0.18154 1 0.00013 0.0851 0.0038 1 0.096769 1 0.03375 1 0.50314 1 0.19555 1 2p gain 10 (2%) 482 0.00103 0.645 0.01764 1 NA NA NA NA 0.01005 1 0.20274 1 0.11511 1 0.03549 1 0.16788 1 0.18692 1 2q gain 7 (1%) 485 0.00094999 0.598 0.10722 1 NA NA NA NA 0.16985 1 0.87721 1 0.50747 1 0.062689 1 0.17612 1 0.15863 1 3p gain 40 (8%) 452 9.9999e-06 0.00733 0.02469 1 0.14522 1 0.62018 1 0.0293 1 0.37117 1 0.02071 1 0.0051899 1 0.00365 1 0.00027 0.175 3q gain 54 (11%) 438 9.9999e-06 0.00733 0.01039 1 0.074319 1 0.28757 1 0.0094999 1 0.0349 1 0.00474 1 0.00441 1 0.015 1 2e-05 0.0135 4p gain 9 (2%) 483 0.02848 1 0.44916 1 NA NA NA NA 0.48273 1 0.69915 1 0.91669 1 0.41554 1 0.60265 1 0.57511 1 4q gain 10 (2%) 482 0.073089 1 0.58511 1 NA NA NA NA 1 1 0.78524 1 0.85602 1 0.17732 1 0.15214 1 0.069949 1 5p gain 23 (5%) 469 9.9999e-06 0.00733 0.01545 1 0.29828 1 0.30976 1 0.02946 1 0.21855 1 0.00139 0.858 0.0018 1 0.00171 1 0.00404 1 5q gain 12 (2%) 480 3e-05 0.0202 0.10603 1 NA NA NA NA 0.03693 1 0.15668 1 0.37691 1 0.15731 1 0.12403 1 0.32461 1 6p gain 10 (2%) 482 0.00131 0.811 0.0061699 1 NA NA NA NA 0.12369 1 0.17011 1 0.67034 1 0.10579 1 0.01829 1 0.073119 1 6q gain 6 (1%) 486 0.02103 1 0.01624 1 NA NA NA NA 0.10157 1 0.68646 1 0.19732 1 0.03869 1 0.27127 1 0.56709 1 7p gain 102 (21%) 390 9.9999e-06 0.00733 9.9999e-06 0.00733 0.41175 1 0.58728 1 9.9999e-06 0.00733 0.00015 0.0979 0.01854 1 4e-05 0.0269 0.00029 0.187 0.00177 1 7q gain 95 (19%) 397 9.9999e-06 0.00733 9.9999e-06 0.00733 0.62131 1 0.71468 1 9.9999e-06 0.00733 0.00111 0.692 0.02311 1 9.9999e-06 0.00733 0.00028 0.181 0.0057599 1 8p gain 71 (14%) 421 9.9999e-06 0.00733 9.9999e-06 0.00733 0.0052499 1 0.0080699 1 0.00073999 0.469 0.00204 1 0.12271 1 0.0052499 1 0.00233 1 0.00228 1 8q gain 124 (25%) 368 9.9999e-06 0.00733 9.9999e-06 0.00733 0.00412 1 0.0094199 1 0.00042 0.269 0.01132 1 0.00055999 0.357 9.9999e-06 0.00733 9.9999e-06 0.00733 9.9999e-06 0.00733 9p gain 34 (7%) 458 9.9999e-06 0.00733 0.0077799 1 0.48456 1 0.17812 1 0.12108 1 0.097789 1 0.48475 1 0.11289 1 0.01764 1 0.18021 1 9q gain 50 (10%) 442 9.9999e-06 0.00733 0.0388 1 0.02534 1 0.01265 1 0.01492 1 0.01726 1 0.36026 1 0.01153 1 0.0072599 1 0.013 1 10p gain 15 (3%) 477 6.9999e-05 0.0465 0.15791 1 0.78723 1 0.78061 1 0.381 1 0.20565 1 0.5745 1 0.01301 1 0.17227 1 0.00076999 0.487 10q gain 14 (3%) 478 2e-04 0.13 0.20376 1 0.03938 1 0.03916 1 0.14957 1 0.19456 1 0.58904 1 0.087309 1 0.27085 1 0.00164 1 11p gain 26 (5%) 466 9.9999e-06 0.00733 0.051299 1 0.76812 1 0.66601 1 0.13871 1 0.0297 1 0.59776 1 0.053159 1 0.03493 1 0.17693 1 11q gain 29 (6%) 463 9.9999e-06 0.00733 0.10455 1 0.76589 1 0.66807 1 0.079739 1 0.051699 1 0.68993 1 0.051469 1 0.086109 1 0.12509 1 12p gain 14 (3%) 478 4e-05 0.0269 0.11619 1 NA NA NA NA 0.3331 1 0.38123 1 0.36526 1 0.00112 0.697 0.0238 1 0.20771 1 12q gain 17 (3%) 475 0.00061999 0.394 0.070799 1 0.47045 1 0.6329 1 0.32986 1 0.36614 1 0.78361 1 0.02049 1 0.01575 1 0.096559 1 13q gain 8 (2%) 484 0.01466 1 0.1323 1 NA NA NA NA 0.63672 1 0.8961 1 0.82302 1 0.56169 1 0.73865 1 0.86472 1 14q gain 10 (2%) 482 4e-05 0.0269 0.58347 1 0.78441 1 0.77935 1 0.24177 1 0.40375 1 0.11378 1 0.25742 1 0.49168 1 0.46661 1 15q gain 6 (1%) 486 0.02082 1 0.84559 1 NA NA NA NA 0.87837 1 0.33686 1 0.77801 1 0.18098 1 0.70646 1 0.31849 1 16p gain 31 (6%) 461 9.9999e-06 0.00733 0.19858 1 0.52009 1 0.52293 1 0.079359 1 0.2693 1 0.15346 1 0.00408 1 0.02643 1 0.01244 1 16q gain 8 (2%) 484 0.083889 1 0.21761 1 0.67677 1 0.56109 1 0.60561 1 0.60257 1 0.102 1 0.0138 1 0.64386 1 0.53974 1 17p gain 8 (2%) 484 0.01476 1 0.52268 1 NA NA NA NA 0.058009 1 0.091199 1 0.0197 1 0.01539 1 0.60846 1 0.00396 1 17q gain 11 (2%) 481 0.00044 0.282 0.32369 1 NA NA NA NA 0.01885 1 0.03831 1 0.090709 1 0.10971 1 0.47337 1 0.00079999 0.505 18p gain 18 (4%) 474 9.9999e-06 0.00733 0.60691 1 1 1 0.71922 1 0.19916 1 0.45473 1 0.68981 1 0.61448 1 0.72283 1 0.44808 1 18q gain 9 (2%) 483 0.00418 1 0.85438 1 1 1 0.48796 1 0.10529 1 0.02494 1 0.63871 1 0.43938 1 0.45252 1 0.66739 1 19p gain 12 (2%) 480 9.9999e-06 0.00733 0.46614 1 NA NA NA NA 0.03755 1 0.6409 1 0.14171 1 0.084889 1 0.51499 1 0.11957 1 19q gain 12 (2%) 480 9.9999e-06 0.00733 0.29847 1 0.78678 1 0.77931 1 0.053209 1 0.69122 1 0.21829 1 0.060379 1 0.50751 1 0.15317 1 20p gain 26 (5%) 466 9.9999e-06 0.00733 0.01938 1 0.37216 1 0.18244 1 0.02619 1 0.29747 1 0.00196 1 0.00407 1 0.03009 1 0.00493 1 20q gain 28 (6%) 464 9.9999e-06 0.00733 0.02751 1 0.62097 1 0.88598 1 0.17637 1 0.26256 1 0.011 1 0.0081699 1 0.1023 1 0.0098699 1 21q gain 21 (4%) 471 9.9999e-06 0.00733 0.02924 1 0.44509 1 0.451 1 0.02451 1 0.092889 1 0.01424 1 0.00323 1 0.01241 1 0.02949 1 22q gain 4 (1%) 488 0.095869 1 NA NA NA NA NA NA 0.7771 1 0.067369 1 0.32506 1 0.40662 1 0.40535 1 0.16076 1 xq gain 7 (1%) 485 0.00096999 0.609 0.18504 1 NA NA NA NA 0.18505 1 0.1285 1 0.50858 1 0.04545 1 0.0064399 1 0.085329 1 1p loss 22 (4%) 470 9.9999e-06 0.00733 0.0057199 1 0.25558 1 0.22824 1 0.01351 1 0.00101 0.633 0.02586 1 0.00323 1 0.02007 1 0.01372 1 1q loss 6 (1%) 486 0.02123 1 0.077569 1 NA NA NA NA 0.33362 1 0.29111 1 0.10044 1 0.10284 1 0.051679 1 0.39289 1 2p loss 16 (3%) 476 8.9999e-05 0.0594 0.073369 1 NA NA NA NA 0.31766 1 0.79278 1 0.13352 1 0.086839 1 0.00367 1 0.0032 1 2q loss 18 (4%) 474 7.9999e-05 0.053 0.17026 1 NA NA NA NA 0.53561 1 0.53253 1 0.12599 1 0.0358 1 0.0085299 1 0.0011 0.687 3p loss 9 (2%) 483 0.03326 1 0.060169 1 NA NA NA NA 0.12863 1 0.14459 1 0.10278 1 0.41208 1 0.051899 1 0.19222 1 3q loss 5 (1%) 487 0.30476 1 0.53105 1 NA NA NA NA 0.32854 1 0.38602 1 0.15348 1 0.0317 1 NA NA NA NA 4p loss 24 (5%) 468 9.9999e-06 0.00733 0.19332 1 0.11702 1 0.15053 1 0.01637 1 0.02496 1 0.00136 0.84 0.00301 1 5e-05 0.0334 0.00011 0.0723 4q loss 17 (3%) 475 9.9999e-06 0.00733 0.16623 1 0.45661 1 0.3847 1 0.053689 1 0.088259 1 0.20144 1 0.04722 1 0.01519 1 0.0053099 1 5p loss 12 (2%) 480 9.9999e-06 0.00733 0.23922 1 0.78457 1 1 1 0.03827 1 0.03344 1 0.86261 1 0.00368 1 0.50959 1 0.10313 1 5q loss 22 (4%) 470 9.9999e-06 0.00733 0.0283 1 0.25612 1 0.22655 1 0.088629 1 0.0079999 1 0.057769 1 0.0011 0.687 0.10941 1 0.02697 1 6p loss 25 (5%) 467 9.9999e-06 0.00733 0.03934 1 0.25458 1 0.22816 1 0.01107 1 0.00337 1 0.057089 1 0.03133 1 0.01456 1 0.00385 1 6q loss 40 (8%) 452 9.9999e-06 0.00733 0.063949 1 0.075579 1 0.16367 1 0.0080799 1 3e-04 0.193 0.01279 1 0.04895 1 0.0043 1 0.00212 1 8p loss 168 (34%) 324 9.9999e-06 0.00733 9.9999e-06 0.00733 0.54485 1 0.93285 1 9.9999e-06 0.00733 6.9999e-05 0.0465 0.00033 0.212 0.079009 1 0.057359 1 0.03208 1 8q loss 24 (5%) 468 0.02904 1 0.00079999 0.505 1 1 0.80457 1 0.0096499 1 0.01459 1 0.10225 1 0.99233 1 0.21711 1 0.24534 1 9p loss 21 (4%) 471 9.9999e-06 0.00733 0.55568 1 0.085289 1 0.072909 1 0.00393 1 0.03403 1 0.2622 1 0.24145 1 0.10854 1 0.062489 1 9q loss 10 (2%) 482 0.00144 0.887 0.61428 1 0.44517 1 0.45232 1 0.26483 1 0.21882 1 0.615 1 0.54826 1 0.52057 1 0.03679 1 10p loss 41 (8%) 451 9.9999e-06 0.00733 9.9999e-06 0.00733 0.0071099 1 0.01227 1 4e-04 0.257 0.00262 1 0.084859 1 7.9999e-05 0.053 0.0109 1 5e-05 0.0334 10q loss 43 (9%) 449 9.9999e-06 0.00733 0.00194 1 0.03985 1 0.03893 1 0.00078999 0.499 0.0073099 1 0.03896 1 0.00124 0.769 0.00161 0.99 5.9999e-05 0.0399 11p loss 8 (2%) 484 0.00225 1 0.49711 1 NA NA NA NA 0.23114 1 0.10098 1 0.32596 1 0.26146 1 0.1131 1 0.10083 1 11q loss 5 (1%) 487 0.01422 1 0.65403 1 NA NA NA NA 0.060029 1 0.084339 1 0.63339 1 0.18783 1 0.02137 1 0.28925 1 12p loss 48 (10%) 444 2e-05 0.0135 0.15698 1 0.19194 1 0.43794 1 0.0071899 1 0.076639 1 0.45549 1 0.01705 1 0.0064699 1 0.00262 1 12q loss 20 (4%) 472 9.9999e-06 0.00733 0.39343 1 0.17375 1 0.12214 1 0.243 1 0.22898 1 1 1 0.051989 1 0.066409 1 0.0084899 1 13q loss 77 (16%) 415 9.9999e-06 0.00733 0.12425 1 0.55434 1 0.46123 1 0.11786 1 0.052659 1 0.18362 1 0.04089 1 0.22606 1 0.00018 0.117 14q loss 25 (5%) 467 9.9999e-06 0.00733 0.0082399 1 0.46454 1 0.48905 1 0.078459 1 0.50685 1 0.40346 1 0.063599 1 0.097219 1 0.066989 1 15q loss 36 (7%) 456 9.9999e-06 0.00733 0.02948 1 0.04122 1 0.092189 1 0.0065299 1 0.10341 1 0.00011 0.0723 0.0070499 1 0.00121 0.751 9.9999e-05 0.0659 16p loss 32 (7%) 460 0.00173 1 0.25096 1 0.75219 1 0.47703 1 0.54996 1 0.25591 1 0.64669 1 0.32199 1 0.22373 1 0.03221 1 16q loss 107 (22%) 385 9.9999e-06 0.00733 5e-05 0.0334 0.50527 1 0.1948 1 0.060499 1 0.00226 1 0.080919 1 0.00059999 0.382 0.00419 1 9.9999e-05 0.0659 17p loss 76 (15%) 416 9.9999e-06 0.00733 0.0076899 1 0.00297 1 0.01005 1 0.00029 0.187 0.00052999 0.338 0.095499 1 0.03212 1 0.02249 1 4e-05 0.0269 17q loss 20 (4%) 472 9.9999e-06 0.00733 0.01207 1 0.45115 1 0.38764 1 0.0067499 1 0.066849 1 0.01239 1 0.04591 1 0.03042 1 0.14508 1 18p loss 68 (14%) 424 9.9999e-06 0.00733 0.00281 1 0.063099 1 0.066869 1 0.02658 1 0.21504 1 0.059109 1 0.03078 1 0.01048 1 0.0050899 1 18q loss 101 (21%) 391 9.9999e-06 0.00733 0.0023 1 0.01574 1 0.01938 1 0.01238 1 0.098149 1 0.0066099 1 0.0034 1 0.01484 1 2e-05 0.0135 19p loss 17 (3%) 475 0.00013 0.0851 0.29965 1 0.62573 1 0.49085 1 0.13323 1 0.50724 1 0.13274 1 0.16057 1 0.00286 1 0.01063 1 19q loss 17 (3%) 475 0.00023 0.149 0.30048 1 0.62152 1 0.49211 1 0.13331 1 0.50305 1 0.13303 1 0.15808 1 0.00276 1 0.0099199 1 20p loss 19 (4%) 473 0.03798 1 0.02912 1 0.89536 1 1 1 0.29276 1 0.49403 1 0.48997 1 0.18701 1 1 1 0.58104 1 20q loss 9 (2%) 483 0.02828 1 0.04867 1 1 1 1 1 0.095209 1 0.10586 1 0.072209 1 0.060639 1 1 1 0.50056 1 21q loss 24 (5%) 468 2e-05 0.0135 0.19085 1 0.50659 1 0.50808 1 0.0151 1 0.03609 1 0.57296 1 0.1016 1 0.42495 1 0.04023 1 22q loss 47 (10%) 445 9.9999e-06 0.00733 0.15294 1 0.44461 1 0.80673 1 0.061389 1 0.078679 1 0.067529 1 0.02871 1 0.14851 1 0.00019 0.124 xq loss 39 (8%) 453 9.9999e-06 0.00733 0.00045 0.288 0.19187 1 0.25999 1 0.00258 1 0.00333 1 9.9999e-06 0.00733 0.03521 1 0.0060199 1 0.096489 1