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 44 (12%) 325 9.9999e-06 0.0079 0.052199 1 0.0053399 1 0.60869 1 0.01744 1 0.40237 1 0.0102 1 0.085279 1 0.00048 0.289 0.04723 1 1q gain 88 (24%) 281 9.9999e-06 0.0079 0.00023 0.145 0.0398 1 0.1768 1 5e-05 0.0333 0.0075499 1 0.01469 1 0.0097599 1 0.00084999 0.502 0.01657 1 2p gain 61 (17%) 308 9.9999e-06 0.0079 0.0062399 1 0.02158 1 0.11802 1 0.14288 1 0.02795 1 0.00095999 0.559 0.0374 1 0.00273 1 0.00122 0.699 2q gain 52 (14%) 317 9.9999e-06 0.0079 0.16324 1 0.23896 1 0.55694 1 0.0448 1 0.02993 1 0.1175 1 0.28286 1 0.10139 1 0.058359 1 3p gain 40 (11%) 329 0.0052899 1 0.01184 1 0.79112 1 0.0255 1 0.62657 1 0.22301 1 0.61216 1 0.58049 1 0.10219 1 0.34353 1 3q gain 69 (19%) 300 0.01343 1 0.31699 1 0.87431 1 0.14938 1 0.16802 1 0.02922 1 0.59678 1 0.52515 1 0.16453 1 0.63794 1 4p gain 13 (4%) 356 0.15923 1 0.50475 1 1 1 0.44832 1 0.38782 1 0.4271 1 0.13459 1 0.93554 1 0.72613 1 0.54097 1 4q gain 9 (2%) 360 0.75864 1 0.28932 1 0.86713 1 0.18601 1 0.091589 1 0.53925 1 0.48563 1 0.45549 1 0.27009 1 0.25971 1 5p gain 84 (23%) 285 9.9999e-06 0.0079 9.9999e-06 0.0079 0.26271 1 0.95982 1 9.9999e-06 0.0079 0.00469 1 0.00193 1 6.9999e-05 0.0463 0.00156 0.872 9.9999e-06 0.0079 5q gain 34 (9%) 335 0.00084999 0.502 0.095159 1 0.65839 1 0.10585 1 0.10513 1 0.3503 1 0.68998 1 0.47439 1 0.49459 1 0.47069 1 6p gain 69 (19%) 300 9.9999e-06 0.0079 9.9999e-06 0.0079 0.082899 1 0.29847 1 0.00024 0.15 0.00405 1 6.9999e-05 0.0463 0.00053999 0.325 0.00013 0.0841 9.9999e-06 0.0079 6q gain 55 (15%) 314 9.9999e-06 0.0079 9.9999e-06 0.0079 0.11944 1 0.24734 1 0.00027 0.168 0.0080999 1 0.00015 0.0966 0.03347 1 0.00011 0.0717 0.00098999 0.574 7p gain 161 (44%) 208 9.9999e-06 0.0079 0.00211 1 0.61185 1 0.83321 1 0.397 1 0.00078999 0.468 0.03135 1 0.11369 1 0.01538 1 0.00142 0.799 7q gain 139 (38%) 230 9.9999e-06 0.0079 0.03838 1 0.84231 1 0.60784 1 0.50815 1 0.0077199 1 0.11946 1 0.32791 1 0.28598 1 0.04593 1 8p gain 155 (42%) 214 2e-05 0.0138 0.01151 1 0.56475 1 0.39193 1 0.34993 1 0.11481 1 0.28314 1 0.64634 1 0.0080799 1 0.21002 1 8q gain 208 (56%) 161 0.00134 0.76 0.01663 1 0.78795 1 0.29893 1 0.02561 1 0.01991 1 0.0052299 1 0.02753 1 0.00023 0.145 0.00341 1 9p gain 48 (13%) 321 0.096979 1 1 1 0.56773 1 0.92363 1 0.37325 1 0.58218 1 0.24271 1 0.82693 1 0.069079 1 0.52666 1 9q gain 61 (17%) 308 0.23817 1 0.98164 1 0.24594 1 0.99444 1 0.43 1 0.92739 1 0.42972 1 0.52549 1 0.50278 1 0.60589 1 10p gain 85 (23%) 284 9.9999e-06 0.0079 2e-05 0.0138 0.10899 1 0.42952 1 0.00164 0.909 0.14758 1 0.19865 1 0.00047 0.284 0.067959 1 0.00028 0.174 10q gain 59 (16%) 310 9.9999e-06 0.0079 0.0064799 1 0.12889 1 0.74279 1 0.02007 1 0.11227 1 0.15061 1 0.14696 1 0.23597 1 0.04012 1 11p gain 45 (12%) 324 0.00121 0.696 0.04082 1 0.93379 1 0.84451 1 0.28257 1 0.39354 1 0.0058499 1 0.0052699 1 0.01791 1 0.04747 1 11q gain 53 (14%) 316 9.9999e-06 0.0079 0.00157 0.874 0.83719 1 1 1 0.31198 1 0.0062199 1 0.00066999 0.401 0.00092999 0.543 0.0063499 1 0.00125 0.715 12p gain 77 (21%) 292 0.00289 1 0.24228 1 0.2382 1 0.33724 1 0.16758 1 0.102 1 0.00139 0.784 0.32295 1 0.0070199 1 0.11549 1 12q gain 66 (18%) 303 0.055769 1 0.96609 1 0.43884 1 0.42248 1 0.96596 1 0.27661 1 0.096369 1 0.54441 1 0.27298 1 0.43044 1 13q gain 129 (35%) 240 9.9999e-06 0.0079 0.00019 0.12 0.56973 1 0.63654 1 0.02234 1 5.9999e-05 0.04 0.0095399 1 0.00343 1 0.00018 0.115 6.9999e-05 0.0463 14q gain 23 (6%) 346 0.00035 0.214 0.25082 1 0.7979 1 0.646 1 0.64115 1 0.52472 1 0.0089299 1 0.63679 1 0.0363 1 0.8202 1 15q gain 31 (8%) 338 5.9999e-05 0.04 0.00211 1 0.20793 1 0.82682 1 0.02005 1 0.12549 1 0.28211 1 0.26762 1 0.36486 1 0.22734 1 16p gain 52 (14%) 317 0.00072999 0.434 0.0095999 1 0.39253 1 0.11344 1 0.073279 1 0.28609 1 0.7541 1 0.83355 1 0.82765 1 0.73245 1 16q gain 42 (11%) 327 0.0067099 1 0.20217 1 0.67268 1 0.2624 1 0.18849 1 0.62419 1 0.56956 1 0.93 1 0.32046 1 0.85397 1 17p gain 21 (6%) 348 0.03731 1 0.86082 1 0.84313 1 0.7737 1 0.50561 1 0.27768 1 0.47236 1 0.51294 1 0.34295 1 0.58886 1 17q gain 46 (12%) 323 0.00091999 0.541 0.21151 1 0.94072 1 0.90203 1 0.53085 1 0.20136 1 0.28874 1 0.66168 1 0.2211 1 0.462 1 18p gain 66 (18%) 303 9.9999e-06 0.0079 9.9999e-06 0.0079 0.095349 1 0.0455 1 0.01556 1 0.00272 1 0.00026 0.162 0.00023 0.145 0.00074999 0.445 0.00076999 0.457 18q gain 45 (12%) 324 0.00369 1 0.0062099 1 0.5966 1 0.23734 1 0.37142 1 0.03298 1 0.04769 1 0.059619 1 0.1315 1 0.092229 1 19p gain 46 (12%) 323 0.01948 1 0.92924 1 0.65734 1 0.087609 1 0.60834 1 0.90791 1 0.76608 1 1 1 0.74055 1 0.45844 1 19q gain 61 (17%) 308 0.00131 0.745 0.36115 1 0.29743 1 0.095629 1 0.01864 1 0.345 1 0.18411 1 0.03243 1 0.10599 1 0.067699 1 20p gain 201 (54%) 168 9.9999e-06 0.0079 0.00012 0.0778 0.084929 1 0.14874 1 0.00069999 0.418 9.9999e-06 0.0079 0.0061399 1 0.00053999 0.325 0.02792 1 0.00011 0.0717 20q gain 231 (63%) 138 9.9999e-06 0.0079 9.9999e-06 0.0079 0.052539 1 0.22739 1 9.9999e-06 0.0079 9.9999e-06 0.0079 0.00019 0.12 9.9999e-06 0.0079 0.01472 1 9.9999e-06 0.0079 21q gain 21 (6%) 348 3e-05 0.0204 0.00031 0.192 0.14493 1 0.63847 1 0.0097699 1 0.03152 1 0.01962 1 0.00041 0.249 0.01952 1 0.00071999 0.429 22q gain 28 (8%) 341 0.00062999 0.377 0.13612 1 0.84604 1 0.21796 1 0.25549 1 0.067049 1 0.24257 1 0.57763 1 0.23588 1 0.4146 1 xq gain 44 (12%) 325 9.9999e-06 0.0079 0.00017 0.109 0.74829 1 0.50719 1 0.052449 1 0.00042 0.255 0.056919 1 0.43894 1 0.12522 1 0.04689 1 1p loss 46 (12%) 323 9.9999e-06 0.0079 0.00011 0.0717 0.059279 1 0.29535 1 0.03627 1 0.01123 1 0.33739 1 0.02431 1 0.12877 1 0.0057099 1 1q loss 21 (6%) 348 5.9999e-05 0.04 0.00014 0.0903 0.03346 1 0.30067 1 0.56528 1 0.2158 1 0.23022 1 0.31555 1 0.24326 1 0.11846 1 2p loss 20 (5%) 349 0.00017 0.109 0.00091999 0.541 0.35026 1 0.53512 1 0.01548 1 0.49052 1 0.12573 1 0.16401 1 0.066689 1 0.59086 1 2q loss 24 (7%) 345 4e-05 0.0268 7.9999e-05 0.0526 0.72927 1 0.93334 1 0.01134 1 0.41207 1 0.1232 1 0.01517 1 0.02297 1 0.15574 1 3p loss 74 (20%) 295 9.9999e-06 0.0079 0.01739 1 0.35978 1 0.19943 1 0.00324 1 3e-04 0.186 0.0095799 1 0.0050299 1 0.01061 1 0.0053299 1 3q loss 47 (13%) 322 9.9999e-06 0.0079 0.00244 1 0.20763 1 0.27197 1 9.9999e-05 0.0654 2e-05 0.0138 0.00261 1 0.00195 1 0.00032 0.197 0.00176 0.968 4p loss 139 (38%) 230 9.9999e-06 0.0079 2e-05 0.0138 0.2803 1 0.10218 1 0.00057999 0.348 0.00021 0.133 0.00426 1 9.9999e-06 0.0079 0.00161 0.895 9.9999e-06 0.0079 4q loss 137 (37%) 232 9.9999e-06 0.0079 3e-05 0.0204 0.070739 1 0.0222 1 0.0062199 1 0.00107 0.618 0.0078899 1 9.9999e-06 0.0079 0.00314 1 9.9999e-06 0.0079 5p loss 47 (13%) 322 9.9999e-06 0.0079 0.00297 1 0.21814 1 0.75641 1 0.00452 1 0.01344 1 0.00474 1 0.0050599 1 0.00091999 0.541 0.00017 0.109 5q loss 81 (22%) 288 9.9999e-06 0.0079 9.9999e-06 0.0079 0.62049 1 0.97688 1 9.9999e-06 0.0079 3e-05 0.0204 2e-05 0.0138 9.9999e-06 0.0079 2e-05 0.0138 9.9999e-06 0.0079 6p loss 43 (12%) 326 9.9999e-06 0.0079 0.00313 1 0.14989 1 0.91253 1 0.02362 1 0.0123 1 0.10863 1 0.00192 1 0.065109 1 0.00232 1 6q loss 56 (15%) 313 9.9999e-06 0.0079 0.00191 1 0.76533 1 0.68091 1 0.04171 1 0.12619 1 0.6028 1 0.02696 1 0.32626 1 0.071709 1 7p loss 14 (4%) 355 0.00133 0.755 0.0073999 1 0.44269 1 0.4027 1 0.00162 0.899 0.21934 1 0.18802 1 0.01774 1 3e-04 0.186 0.00244 1 7q loss 26 (7%) 343 2e-05 0.0138 0.00265 1 0.65255 1 0.3741 1 0.02758 1 0.18912 1 0.04623 1 0.066019 1 0.00018 0.115 0.04382 1 8p loss 65 (18%) 304 9.9999e-06 0.0079 0.04416 1 0.39925 1 0.76845 1 0.0086199 1 0.00138 0.781 0.0051199 1 0.0076599 1 3e-05 0.0204 0.00094999 0.554 8q loss 20 (5%) 349 0.01976 1 0.4226 1 0.94171 1 0.23952 1 0.69969 1 0.95945 1 0.36716 1 0.63096 1 0.40846 1 0.75322 1 9p loss 116 (31%) 253 9.9999e-06 0.0079 9.9999e-06 0.0079 0.00165 0.912 0.00028 0.174 9.9999e-06 0.0079 0.00013 0.0841 0.00090999 0.536 3e-05 0.0204 0.068009 1 9.9999e-05 0.0654 9q loss 81 (22%) 288 9.9999e-06 0.0079 0.00145 0.813 0.24701 1 0.01648 1 0.00015 0.0966 0.01668 1 0.00148 0.829 0.00097999 0.569 0.0057999 1 0.00156 0.872 10p loss 49 (13%) 320 3e-05 0.0204 0.03612 1 0.55222 1 0.089259 1 0.015 1 0.073549 1 0.01202 1 0.01159 1 0.0061999 1 0.01454 1 10q loss 55 (15%) 314 9.9999e-06 0.0079 0.0045 1 0.60915 1 0.03181 1 0.00091999 0.541 0.00256 1 0.0086799 1 0.01911 1 0.01288 1 0.00112 0.645 11p loss 54 (15%) 315 2e-05 0.0138 0.01151 1 0.0091099 1 0.13564 1 0.098699 1 0.19767 1 0.12053 1 0.01922 1 0.13168 1 0.0069299 1 11q loss 52 (14%) 317 0.00121 0.696 0.24105 1 0.52851 1 0.38358 1 0.67872 1 0.60596 1 0.30615 1 0.28824 1 0.10277 1 0.14372 1 12p loss 48 (13%) 321 9.9999e-06 0.0079 9.9999e-06 0.0079 0.26367 1 0.097549 1 8.9999e-05 0.0591 9.9999e-06 0.0079 0.061819 1 9.9999e-06 0.0079 0.02437 1 9.9999e-06 0.0079 12q loss 38 (10%) 331 9.9999e-06 0.0079 2e-05 0.0138 0.54453 1 0.1138 1 0.00338 1 0.0058099 1 0.66455 1 0.00492 1 0.17839 1 0.00021 0.133 13q loss 31 (8%) 338 5.9999e-05 0.04 0.69399 1 0.68584 1 0.3041 1 0.28017 1 0.60121 1 0.72842 1 0.91102 1 0.33471 1 0.60335 1 14q loss 88 (24%) 281 9.9999e-06 0.0079 8.9999e-05 0.0591 0.56094 1 0.53055 1 0.00111 0.64 0.0069099 1 0.03648 1 0.00143 0.804 0.0134 1 0.00467 1 15q loss 78 (21%) 291 9.9999e-06 0.0079 0.00138 0.781 0.01033 1 0.64759 1 0.00015 0.0966 0.00165 0.912 0.00394 1 0.00031 0.192 0.00031 0.192 0.00011 0.0717 16p loss 77 (21%) 292 9.9999e-06 0.0079 0.00036 0.22 0.81087 1 0.84218 1 9.9999e-06 0.0079 9.9999e-06 0.0079 2e-05 0.0138 8.9999e-05 0.0591 2e-05 0.0138 9.9999e-06 0.0079 16q loss 86 (23%) 283 9.9999e-06 0.0079 9.9999e-06 0.0079 0.04678 1 0.083229 1 9.9999e-06 0.0079 2e-05 0.0138 0.00028 0.174 0.00024 0.15 0.00445 1 3e-05 0.0204 17p loss 131 (36%) 238 9.9999e-06 0.0079 9.9999e-06 0.0079 0.50377 1 0.02861 1 9.9999e-06 0.0079 9.9999e-06 0.0079 0.00018 0.115 4e-05 0.0268 6.9999e-05 0.0463 9.9999e-06 0.0079 17q loss 61 (17%) 308 9.9999e-06 0.0079 9.9999e-06 0.0079 0.3985 1 0.0097699 1 0.00105 0.608 0.00338 1 0.04236 1 0.00034 0.208 0.0053099 1 2e-05 0.0138 18p loss 107 (29%) 262 9.9999e-06 0.0079 0.63081 1 0.50463 1 0.62003 1 0.39351 1 0.25817 1 0.18682 1 0.42177 1 0.36315 1 0.20748 1 18q loss 132 (36%) 237 9.9999e-06 0.0079 0.02667 1 0.29353 1 0.86798 1 0.0070799 1 0.02254 1 0.0051399 1 0.00329 1 0.01398 1 0.00129 0.735 19p loss 93 (25%) 276 9.9999e-06 0.0079 9.9999e-06 0.0079 0.00397 1 0.070229 1 9.9999e-06 0.0079 9.9999e-06 0.0079 9.9999e-06 0.0079 9.9999e-06 0.0079 9.9999e-06 0.0079 9.9999e-06 0.0079 19q loss 72 (20%) 297 9.9999e-06 0.0079 9.9999e-06 0.0079 0.01799 1 0.14351 1 9.9999e-06 0.0079 3e-05 0.0204 9.9999e-06 0.0079 9.9999e-06 0.0079 9.9999e-06 0.0079 9.9999e-06 0.0079 20p loss 19 (5%) 350 0.00033 0.203 0.00036 0.22 1 1 0.3702 1 0.00044 0.266 0.057419 1 0.10628 1 0.64636 1 0.43566 1 0.58754 1 21q loss 143 (39%) 226 9.9999e-06 0.0079 0.02317 1 0.1011 1 0.2969 1 0.03695 1 0.00167 0.92 0.00039 0.238 0.0052599 1 0.00015 0.0966 0.00198 1 22q loss 116 (31%) 253 9.9999e-06 0.0079 9.9999e-06 0.0079 0.01497 1 0.0071399 1 0.00125 0.715 0.00432 1 4e-05 0.0268 9.9999e-06 0.0079 4e-04 0.243 9.9999e-06 0.0079 xq loss 43 (12%) 326 9.9999e-06 0.0079 4e-05 0.0268 0.2635 1 0.069589 1 0.057209 1 0.15787 1 0.04579 1 0.79487 1 0.04858 1 0.18579 1