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 amp_2q33.1 87 (20%) 351 0.16498 1 0.1144 1 0.00013 0.0827 0.00469 1 0.04247 1 0.04852 1 0.00091999 0.516 0.01238 1 0.29326 1 0.10547 1 0.1851 1 0.067419 1 amp_5p13.2 84 (19%) 354 0.37901 1 0.191 1 0.00012 0.0767 0.54811 1 0.00471 1 0.91412 1 0.02344 1 0.00355 1 0.72726 1 0.66458 1 0.070759 1 0.61749 1 amp_5q22.3 43 (10%) 395 0.92364 1 1 1 0.0066099 1 0.80523 1 0.32381 1 0.64207 1 0.2988 1 0.04356 1 0.94878 1 0.70164 1 0.22698 1 0.43442 1 amp_6p21.1 94 (21%) 344 0.26419 1 2e-05 0.0135 9.9999e-06 0.00828 0.096699 1 0.50287 1 0.70038 1 0.0034 1 0.00029 0.176 0.70632 1 0.77623 1 0.00081999 0.465 0.25401 1 amp_8p11.23 154 (35%) 284 0.30252 1 0.10974 1 9.9999e-06 0.00828 0.38868 1 0.76423 1 0.62622 1 0.095769 1 0.01326 1 0.36183 1 0.26662 1 0.25508 1 0.98372 1 amp_8p11.21 183 (42%) 255 0.44321 1 0.0188 1 9.9999e-06 0.00828 0.2877 1 0.24345 1 0.02382 1 0.21271 1 0.0069199 1 0.71841 1 0.32057 1 0.26633 1 0.84184 1 amp_8q12.1 228 (52%) 210 0.4895 1 0.0057199 1 9.9999e-06 0.00828 0.0072599 1 0.0099199 1 0.00324 1 0.00025 0.153 4e-05 0.0262 0.38672 1 0.039 1 0.00026 0.159 0.055959 1 amp_8q24.21 251 (57%) 187 0.56654 1 0.02853 1 9.9999e-06 0.00828 0.00054999 0.323 0.0372 1 0.01324 1 0.00088999 0.503 2e-05 0.0135 0.711 1 0.03654 1 0.00058999 0.345 0.04458 1 amp_11p15.5 91 (21%) 347 4e-05 0.0262 0.0062799 1 9.9999e-06 0.00828 2e-05 0.0135 0.00089999 0.508 0.03265 1 9.9999e-06 0.00828 9.9999e-06 0.00828 0.10608 1 9.9999e-06 0.00828 0.00218 1 9.9999e-06 0.00828 amp_12p13.33 108 (25%) 330 0.65749 1 0.79145 1 0.050829 1 0.04955 1 0.42346 1 0.8743 1 0.9561 1 0.55811 1 0.51205 1 0.79743 1 0.67291 1 0.69386 1 amp_13q12.13 267 (61%) 171 9.9999e-06 0.00828 9.9999e-06 0.00828 9.9999e-06 0.00828 9.9999e-06 0.00828 0.0050299 1 0.01957 1 9.9999e-06 0.00828 9.9999e-06 0.00828 0.57411 1 0.80927 1 9.9999e-06 0.00828 0.00096999 0.541 amp_13q22.1 270 (62%) 168 0.00012 0.0767 9.9999e-06 0.00828 9.9999e-06 0.00828 9.9999e-06 0.00828 0.0084499 1 0.04712 1 9.9999e-06 0.00828 9.9999e-06 0.00828 0.45596 1 0.99628 1 9.9999e-06 0.00828 0.00388 1 amp_16p11.2 121 (28%) 317 0.00042 0.249 9.9999e-06 0.00828 9.9999e-06 0.00828 0.02558 1 0.02984 1 0.12467 1 9.9999e-06 0.00828 9.9999e-06 0.00828 0.8941 1 0.14234 1 0.00050999 0.301 0.00135 0.734 amp_16q12.1 107 (24%) 331 2e-05 0.0135 9.9999e-06 0.00828 9.9999e-06 0.00828 0.056899 1 0.10899 1 0.19011 1 9.9999e-06 0.00828 9.9999e-06 0.00828 0.97516 1 0.081819 1 0.00014 0.0886 0.00019 0.118 amp_17p11.2 43 (10%) 395 0.26391 1 0.00403 1 0.01687 1 0.086499 1 0.00431 1 0.060519 1 0.25305 1 0.63848 1 0.54551 1 0.804 1 0.2607 1 0.21473 1 amp_17q12 109 (25%) 329 0.02657 1 0.01362 1 9.9999e-06 0.00828 0.00064999 0.376 0.14042 1 0.00244 1 0.00022 0.136 0.00135 0.734 0.03724 1 0.01481 1 0.03909 1 0.03462 1 amp_17q24.1 102 (23%) 336 0.01626 1 0.0077099 1 9.9999e-06 0.00828 0.00022 0.136 0.060909 1 0.00226 1 4e-05 0.0262 2e-05 0.0135 0.01161 1 0.054149 1 0.054729 1 0.00367 1 amp_19p13.2 71 (16%) 367 0.066929 1 0.054789 1 3e-05 0.0198 0.01235 1 0.67245 1 0.38084 1 0.69281 1 0.00266 1 0.34961 1 0.43648 1 0.01088 1 0.0308 1 amp_19q13.11 90 (21%) 348 0.18381 1 0.0313 1 9.9999e-06 0.00828 0.095839 1 0.03376 1 0.31264 1 0.069319 1 0.00015 0.0942 0.45995 1 0.55766 1 0.02889 1 0.079169 1 amp_20p11.23 215 (49%) 223 0.078699 1 0.00055999 0.328 9.9999e-06 0.00828 0.02918 1 0.0064699 1 0.20251 1 9.9999e-06 0.00828 9.9999e-06 0.00828 0.42343 1 0.12535 1 0.00203 1 0.02843 1 amp_20q11.21 314 (72%) 124 9.9999e-06 0.00828 9.9999e-06 0.00828 9.9999e-06 0.00828 9.9999e-06 0.00828 0.00067999 0.392 0.00206 1 9.9999e-06 0.00828 9.9999e-06 0.00828 0.82067 1 0.0012 0.656 9.9999e-06 0.00828 2e-05 0.0135 amp_20q12 315 (72%) 123 9.9999e-06 0.00828 9.9999e-06 0.00828 9.9999e-06 0.00828 9.9999e-06 0.00828 0.00047 0.279 0.00039 0.233 9.9999e-06 0.00828 9.9999e-06 0.00828 0.77534 1 0.00127 0.693 9.9999e-06 0.00828 3e-05 0.0198 amp_20q13.32 317 (72%) 121 9.9999e-06 0.00828 9.9999e-06 0.00828 9.9999e-06 0.00828 9.9999e-06 0.00828 0.00057999 0.339 0.00034 0.204 9.9999e-06 0.00828 9.9999e-06 0.00828 0.78949 1 0.00272 1 9.9999e-06 0.00828 2e-05 0.0135 del_1p36.11 165 (38%) 273 0.00016 0.0998 0.0079499 1 9.9999e-06 0.00828 2e-05 0.0135 0.02324 1 0.01774 1 9.9999e-06 0.00828 9.9999e-06 0.00828 0.66244 1 0.02033 1 2e-05 0.0135 0.00065999 0.381 del_1p33 121 (28%) 317 0.01527 1 0.55834 1 9.9999e-06 0.00828 0.00022 0.136 0.83047 1 0.48903 1 0.00025 0.153 0.00036 0.216 0.71626 1 0.15332 1 0.00107 0.595 6.9999e-05 0.0454 del_1p13.1 116 (26%) 322 0.086859 1 0.54479 1 9.9999e-06 0.00828 0.01246 1 0.68121 1 0.89176 1 0.00114 0.632 0.00143 0.775 0.8008 1 0.1663 1 0.04402 1 0.00115 0.634 del_1q43 54 (12%) 384 0.062119 1 0.49824 1 9.9999e-06 0.00828 0.03022 1 0.46685 1 0.71767 1 0.00117 0.641 0.00073999 0.424 0.14178 1 0.00071999 0.413 0.00111 0.616 0.11831 1 del_2p21 16 (4%) 422 0.59189 1 0.86485 1 0.61818 1 0.76706 1 0.80965 1 0.71429 1 0.65745 1 0.24631 1 0.091989 1 0.34967 1 0.26927 1 0.65175 1 del_2q32.1 14 (3%) 424 0.95927 1 0.66809 1 0.15716 1 0.26434 1 0.65019 1 0.98645 1 0.03382 1 0.31905 1 0.19362 1 0.20447 1 1 1 0.55749 1 del_3p26.1 68 (16%) 370 0.12142 1 0.38018 1 9.9999e-06 0.00828 0.13403 1 0.74954 1 0.55587 1 0.01891 1 0.063169 1 0.83363 1 0.89712 1 0.00174 0.938 0.13485 1 del_3p14.2 83 (19%) 355 0.55304 1 0.83975 1 0.0191 1 0.27159 1 0.52511 1 0.04165 1 0.11767 1 0.095249 1 0.65222 1 0.69806 1 0.00434 1 0.80533 1 del_3q26.31 46 (11%) 392 0.7063 1 0.93291 1 9.9999e-06 0.00828 0.16818 1 0.5063 1 0.79917 1 0.080709 1 0.2023 1 0.45147 1 0.56995 1 0.0068499 1 0.02526 1 del_4p16.2 133 (30%) 305 0.00062999 0.366 0.0018 0.968 9.9999e-06 0.00828 0.00063999 0.371 0.02709 1 0.16011 1 9.9999e-06 0.00828 9.9999e-06 0.00828 0.35585 1 0.44764 1 0.00014 0.0886 0.090299 1 del_4q22.1 144 (33%) 294 4e-04 0.238 0.00361 1 9.9999e-06 0.00828 9.9999e-05 0.0644 0.10428 1 0.15474 1 9.9999e-06 0.00828 9.9999e-06 0.00828 0.38839 1 0.17281 1 0.00019 0.118 0.0076399 1 del_4q35.1 152 (35%) 286 0.00095999 0.537 0.0073499 1 9.9999e-06 0.00828 9.9999e-06 0.00828 0.01302 1 0.30003 1 4e-05 0.0262 9.9999e-06 0.00828 0.36152 1 0.41541 1 9.9999e-06 0.00828 0.0178 1 del_5q11.2 100 (23%) 338 0.00116 0.637 0.00358 1 9.9999e-06 0.00828 0.0106 1 0.00078999 0.45 0.03367 1 2e-05 0.0135 0.00015 0.0942 0.70747 1 0.56537 1 0.00013 0.0827 0.31519 1 del_5q21.3 125 (29%) 313 0.066739 1 0.01925 1 9.9999e-06 0.00828 0.01386 1 0.04582 1 0.26002 1 0.00026 0.159 6.9999e-05 0.0454 0.96629 1 0.93188 1 0.01835 1 0.33965 1 del_5q23.1 116 (26%) 322 0.04991 1 0.01213 1 9.9999e-06 0.00828 0.02035 1 0.02475 1 0.34815 1 7.9999e-05 0.0517 0.00012 0.0767 0.86514 1 0.39371 1 0.00229 1 0.21615 1 del_6p25.3 55 (13%) 383 0.85111 1 0.73623 1 0.00223 1 0.03052 1 0.04325 1 0.57422 1 0.93807 1 0.79747 1 0.66847 1 0.93886 1 0.17366 1 0.8092 1 del_6q26 60 (14%) 378 0.58519 1 0.40058 1 0.0373 1 0.47422 1 0.081769 1 0.22325 1 0.086409 1 0.38235 1 0.6987 1 0.93934 1 0.44749 1 0.38392 1 del_7q31.1 12 (3%) 426 1 1 0.59863 1 0.32104 1 0.59918 1 0.16424 1 0.46217 1 0.20129 1 0.22333 1 0.79573 1 0.82949 1 0.62762 1 0.16577 1 del_8p23.3 182 (42%) 256 0.01131 1 0.00019 0.118 9.9999e-06 0.00828 2e-05 0.0135 0.00465 1 0.0079799 1 9.9999e-06 0.00828 9.9999e-06 0.00828 0.21693 1 0.051729 1 9.9999e-06 0.00828 0.01971 1 del_8p22 197 (45%) 241 0.00259 1 0.00014 0.0886 9.9999e-06 0.00828 2e-05 0.0135 0.0074099 1 0.00076999 0.44 9.9999e-06 0.00828 9.9999e-06 0.00828 0.4834 1 0.01785 1 9.9999e-06 0.00828 0.01294 1 del_8p11.21 46 (11%) 392 0.02522 1 0.11797 1 9.9999e-06 0.00828 0.15634 1 0.04355 1 0.16702 1 0.066949 1 0.0060899 1 0.35831 1 0.04758 1 0.066069 1 0.12307 1 del_9p21.3 60 (14%) 378 0.45223 1 0.088769 1 0.00015 0.0942 0.071739 1 0.82138 1 0.40825 1 0.02244 1 0.0054999 1 0.61777 1 0.25511 1 0.04767 1 0.84908 1 del_10p15.3 77 (18%) 361 0.11491 1 0.10393 1 9.9999e-06 0.00828 0.00064999 0.376 0.02224 1 0.14279 1 0.04042 1 0.00019 0.118 0.45531 1 0.18046 1 0.00131 0.714 0.0071799 1 del_10q21.1 92 (21%) 346 0.00317 1 0.02779 1 9.9999e-06 0.00828 0.0099599 1 0.071019 1 0.25903 1 0.00077999 0.445 9.9999e-05 0.0644 0.75241 1 0.49061 1 0.00114 0.632 0.057889 1 del_10q23.31 105 (24%) 333 0.099109 1 0.063269 1 9.9999e-06 0.00828 0.00328 1 0.14749 1 0.47321 1 0.00366 1 0.00015 0.0942 0.58037 1 0.13515 1 0.00022 0.136 5e-04 0.296 del_10q25.2 105 (24%) 333 0.1253 1 0.01825 1 9.9999e-06 0.00828 9.9999e-05 0.0644 0.0069899 1 0.087189 1 0.00050999 0.301 2e-05 0.0135 0.9624 1 0.49002 1 9.9999e-06 0.00828 0.00194 1 del_12p13.2 58 (13%) 380 0.01027 1 0.00339 1 9.9999e-06 0.00828 0.0089399 1 0.31008 1 0.91799 1 0.00081999 0.465 4e-05 0.0262 0.79276 1 0.35521 1 0.0051599 1 0.0089199 1 del_13q14.13 19 (4%) 419 0.27634 1 0.86425 1 0.02531 1 0.22212 1 0.23979 1 0.2518 1 0.57057 1 0.66129 1 0.68776 1 0.94303 1 0.63494 1 0.9259 1 del_14q31.1 145 (33%) 293 9.9999e-06 0.00828 7.9999e-05 0.0517 9.9999e-06 0.00828 2e-05 0.0135 0.00032 0.193 0.01925 1 9.9999e-06 0.00828 9.9999e-06 0.00828 0.33368 1 0.02182 1 5e-05 0.0325 0.01558 1 del_15q11.2 171 (39%) 267 0.00050999 0.301 0.00089999 0.508 9.9999e-06 0.00828 0.00060999 0.356 0.02226 1 0.063149 1 9.9999e-06 0.00828 9.9999e-06 0.00828 0.98069 1 0.77593 1 2e-05 0.0135 0.0070399 1 del_15q15.2 166 (38%) 272 0.00187 1 0.00060999 0.356 9.9999e-06 0.00828 3e-04 0.182 0.0093699 1 0.02591 1 9.9999e-06 0.00828 9.9999e-06 0.00828 0.9227 1 0.55521 1 9.9999e-05 0.0644 0.00261 1 del_15q21.1 163 (37%) 275 0.0189 1 0.01471 1 9.9999e-06 0.00828 0.00114 0.632 0.0093599 1 0.054889 1 9.9999e-06 0.00828 9.9999e-06 0.00828 0.88559 1 0.67667 1 0.00014 0.0886 0.00361 1 del_15q22.33 158 (36%) 280 0.00017 0.106 0.00035 0.21 9.9999e-06 0.00828 3e-05 0.0198 0.04374 1 0.059249 1 9.9999e-06 0.00828 9.9999e-06 0.00828 0.66355 1 0.7286 1 5e-05 0.0325 0.00027 0.164 del_16p13.3 55 (13%) 383 0.22976 1 0.062959 1 0.02207 1 0.060279 1 0.3943 1 0.51649 1 0.23738 1 0.25793 1 0.85226 1 0.69805 1 0.149 1 0.68908 1 del_16q23.1 59 (13%) 379 0.26998 1 0.0054099 1 0.17212 1 0.8508 1 0.13948 1 0.61276 1 0.2072 1 0.01336 1 0.52528 1 0.46364 1 0.86051 1 0.91603 1 del_17p12 246 (56%) 192 9.9999e-06 0.00828 9.9999e-06 0.00828 9.9999e-06 0.00828 9.9999e-06 0.00828 0.01272 1 0.00115 0.634 9.9999e-06 0.00828 9.9999e-06 0.00828 0.66705 1 0.0221 1 9.9999e-06 0.00828 2e-05 0.0135 del_17q24.3 65 (15%) 373 0.094729 1 0.51252 1 0.0171 1 0.01091 1 0.82699 1 0.31445 1 0.00070999 0.408 0.054979 1 0.70831 1 0.96984 1 0.01109 1 0.13818 1 del_18p11.31 237 (54%) 201 9.9999e-06 0.00828 9.9999e-06 0.00828 9.9999e-06 0.00828 9.9999e-06 0.00828 0.00090999 0.511 0.01028 1 9.9999e-06 0.00828 9.9999e-06 0.00828 0.8376 1 0.01082 1 9.9999e-06 0.00828 5e-05 0.0325 del_18q12.2 263 (60%) 175 9.9999e-06 0.00828 9.9999e-06 0.00828 9.9999e-06 0.00828 9.9999e-06 0.00828 0.00234 1 0.00197 1 9.9999e-06 0.00828 9.9999e-06 0.00828 0.94248 1 0.01837 1 9.9999e-06 0.00828 9.9999e-06 0.00828 del_18q21.2 277 (63%) 161 9.9999e-06 0.00828 9.9999e-06 0.00828 9.9999e-06 0.00828 9.9999e-06 0.00828 0.00102 0.568 0.00052999 0.312 9.9999e-06 0.00828 9.9999e-06 0.00828 0.44396 1 0.03444 1 9.9999e-06 0.00828 0.00016 0.0998 del_18q22.1 277 (63%) 161 9.9999e-06 0.00828 9.9999e-06 0.00828 9.9999e-06 0.00828 9.9999e-06 0.00828 0.00238 1 0.00039 0.233 9.9999e-06 0.00828 9.9999e-06 0.00828 0.58201 1 0.072749 1 9.9999e-06 0.00828 0.00032 0.193 del_19p13.3 63 (14%) 375 0.12988 1 0.12475 1 0.00033 0.199 0.11047 1 0.98147 1 0.20928 1 0.00371 1 0.00018 0.112 0.65143 1 0.0085499 1 0.02662 1 0.42694 1 del_20p12.1 124 (28%) 314 0.01781 1 0.03136 1 9.9999e-06 0.00828 0.00143 0.775 0.68613 1 0.078929 1 0.00272 1 0.00092999 0.521 0.45247 1 0.070489 1 0.064719 1 0.078939 1 del_20p12.1 124 (28%) 314 0.01799 1 0.03113 1 9.9999e-06 0.00828 0.00159 0.859 0.68491 1 0.079329 1 0.00235 1 0.00075999 0.435 0.45501 1 0.069389 1 0.067049 1 0.078589 1 del_21q11.2 137 (31%) 301 0.01581 1 0.068889 1 9.9999e-06 0.00828 0.050919 1 0.16122 1 0.81889 1 0.00014 0.0886 0.00011 0.0704 0.93504 1 0.1278 1 0.00013 0.0827 0.063349 1 del_22q13.32 154 (35%) 284 4e-04 0.238 0.00031 0.188 9.9999e-06 0.00828 0.00079999 0.454 0.11786 1 0.245 1 9.9999e-06 0.00828 9.9999e-06 0.00828 0.34475 1 0.75068 1 9.9999e-06 0.00828 0.0084999 1