Clinical Features CN_CNMF METHLYATION_CNMF 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 1p gain 37 (20%) 147 0.64824 1 0.22434 1 0.67298 1 0.69184 1 1 1 0.88368 1 0.45273 1 0.96515 1 1q gain 63 (34%) 121 0.061829 1 0.20695 1 0.23976 1 0.11311 1 0.38333 1 0.48842 1 0.50703 1 0.62813 1 2p gain 61 (33%) 123 0.01205 1 0.03142 1 0.14737 1 0.41625 1 0.03704 1 0.34202 1 0.00283 1 0.50673 1 2q gain 46 (25%) 138 0.26654 1 0.070069 1 0.50211 1 0.17765 1 0.48559 1 0.76777 1 0.2565 1 0.8862 1 3p gain 31 (17%) 153 0.30494 1 0.44708 1 0.2743 1 0.93454 1 0.77926 1 0.60921 1 0.86207 1 0.61561 1 3q gain 77 (42%) 107 9.9999e-06 0.0064 0.02034 1 0.28569 1 0.03006 1 0.30818 1 0.24077 1 0.16668 1 0.41084 1 4p gain 19 (10%) 165 0.52867 1 0.85677 1 0.11288 1 1 1 1 1 0.95854 1 0.97993 1 1 1 4q gain 18 (10%) 166 0.086929 1 0.32734 1 0.00261 1 0.36664 1 0.30599 1 0.54549 1 0.55821 1 0.49095 1 5p gain 76 (41%) 108 4e-05 0.0245 0.02734 1 0.092049 1 0.1579 1 0.01342 1 0.03327 1 0.050109 1 0.01641 1 5q gain 20 (11%) 164 0.40932 1 0.779 1 0.46926 1 0.60363 1 0.69876 1 0.98645 1 0.7519 1 0.79299 1 6p gain 38 (21%) 146 0.24051 1 0.36878 1 0.69966 1 0.38814 1 0.25145 1 0.1031 1 0.11466 1 0.0303 1 6q gain 33 (18%) 151 0.23502 1 0.32796 1 0.70578 1 0.2475 1 0.37656 1 0.28589 1 0.14902 1 0.082879 1 7p gain 110 (60%) 74 0.34769 1 0.23454 1 0.11498 1 0.02727 1 0.074829 1 0.20755 1 0.55518 1 0.11041 1 7q gain 89 (48%) 95 0.66605 1 0.28931 1 0.69702 1 0.02312 1 0.42326 1 0.74542 1 0.8362 1 0.12371 1 8p gain 68 (37%) 116 0.317 1 0.537 1 0.77326 1 0.62474 1 0.37292 1 0.83353 1 0.55977 1 0.7374 1 8q gain 101 (55%) 83 0.46613 1 0.28598 1 0.40574 1 0.4058 1 0.29245 1 0.7259 1 0.91253 1 0.97603 1 9p gain 16 (9%) 168 0.79928 1 0.48158 1 0.45143 1 0.79496 1 0.56443 1 0.1839 1 0.58718 1 0.46776 1 9q gain 33 (18%) 151 0.39393 1 0.25697 1 0.3349 1 0.94223 1 0.38425 1 0.02902 1 0.67326 1 0.079799 1 10p gain 40 (22%) 144 0.0363 1 0.02737 1 0.20108 1 0.30985 1 0.119 1 0.21806 1 0.055579 1 0.075349 1 10q gain 30 (16%) 154 0.01502 1 0.0342 1 0.15033 1 0.23167 1 0.080399 1 0.070119 1 0.051809 1 0.02245 1 11p gain 39 (21%) 145 0.64587 1 0.91653 1 0.1494 1 0.67714 1 0.34492 1 0.31791 1 0.87504 1 0.48087 1 11q gain 29 (16%) 155 0.28803 1 0.31567 1 0.10542 1 0.02284 1 0.04767 1 0.17412 1 0.081579 1 0.077229 1 12p gain 58 (32%) 126 0.02263 1 0.00385 1 0.0085699 1 0.0055499 1 0.0059199 1 0.00283 1 0.0033 1 0.0093799 1 12q gain 38 (21%) 146 0.17426 1 0.32135 1 0.42693 1 0.2801 1 0.39308 1 0.45032 1 0.26751 1 0.25825 1 13q gain 43 (23%) 141 0.00248 1 9.9999e-06 0.0064 0.00112 0.637 9.9999e-06 0.0064 9.9999e-06 0.0064 5e-05 0.0305 0.00018 0.107 9.9999e-06 0.0064 14q gain 48 (26%) 136 0.03512 1 0.084039 1 0.13906 1 0.057729 1 0.0385 1 0.035 1 0.13791 1 0.052579 1 15q gain 30 (16%) 154 0.38948 1 0.28038 1 0.35037 1 0.03405 1 0.45361 1 0.37479 1 0.3192 1 0.36542 1 16p gain 41 (22%) 143 0.00378 1 0.098069 1 0.01952 1 0.00451 1 0.02568 1 0.03453 1 0.082889 1 0.056649 1 16q gain 38 (21%) 146 0.00081999 0.471 0.02723 1 0.0090499 1 0.0032 1 0.0123 1 0.0061899 1 0.00289 1 0.0067699 1 17p gain 33 (18%) 151 0.050659 1 0.0314 1 0.30237 1 0.24303 1 0.36595 1 0.45118 1 0.54273 1 0.55206 1 17q gain 45 (24%) 139 0.14014 1 0.2061 1 0.36958 1 0.41055 1 0.85417 1 0.93791 1 0.99218 1 0.6368 1 18p gain 50 (27%) 134 0.061729 1 0.37705 1 0.64412 1 0.33303 1 0.0228 1 0.87282 1 0.93679 1 0.8117 1 18q gain 26 (14%) 158 0.73768 1 0.81533 1 0.97213 1 0.77188 1 0.39809 1 0.30294 1 0.38219 1 0.22683 1 19p gain 28 (15%) 156 0.42979 1 0.28225 1 0.26278 1 0.62028 1 0.3813 1 0.9055 1 0.53662 1 0.49725 1 19q gain 38 (21%) 146 0.10119 1 0.13956 1 0.17793 1 0.10078 1 0.04425 1 0.35313 1 0.39832 1 0.11111 1 20p gain 108 (59%) 76 0.00464 1 0.058159 1 0.18163 1 0.5322 1 0.099129 1 0.2626 1 0.38535 1 0.057729 1 20q gain 115 (62%) 69 5e-05 0.0305 0.00031 0.183 0.04519 1 0.081299 1 4e-04 0.234 0.00064999 0.375 0.0058499 1 4e-05 0.0245 21q gain 18 (10%) 166 1 1 0.56448 1 0.02911 1 0.29721 1 0.21264 1 0.42646 1 0.3875 1 0.22938 1 22q gain 31 (17%) 153 2e-05 0.0125 2e-05 0.0125 2e-04 0.119 0.00016 0.0957 2e-05 0.0125 3e-05 0.0185 9.9999e-06 0.0064 2e-05 0.0125 xq gain 36 (20%) 148 0.063129 1 0.03753 1 0.22148 1 0.065809 1 0.01182 1 0.01939 1 0.064139 1 0.076299 1 1p loss 38 (21%) 146 0.0090399 1 0.0232 1 0.00273 1 0.23363 1 0.02046 1 0.03205 1 0.0096099 1 0.04396 1 1q loss 22 (12%) 162 0.03862 1 0.23136 1 0.11434 1 0.17497 1 0.074469 1 0.11957 1 0.02354 1 0.12658 1 2p loss 11 (6%) 173 0.85462 1 0.13434 1 0.088499 1 0.81893 1 0.38067 1 0.00178 1 0.83254 1 0.37301 1 2q loss 18 (10%) 166 0.35584 1 0.03193 1 0.27187 1 0.32183 1 0.064339 1 0.0070499 1 0.28241 1 0.087809 1 3p loss 93 (51%) 91 2e-05 0.0125 6.9999e-05 0.0424 0.00254 1 0.00302 1 9.9999e-06 0.0064 9.9999e-06 0.0064 0.00117 0.663 9.9999e-06 0.0064 3q loss 33 (18%) 151 0.85698 1 0.66951 1 0.31174 1 0.50985 1 0.65261 1 0.91267 1 0.66268 1 0.8906 1 4p loss 105 (57%) 79 0.00059999 0.347 0.076249 1 0.01937 1 0.15283 1 0.01773 1 0.28549 1 0.18422 1 0.41 1 4q loss 87 (47%) 97 0.00043 0.251 0.04607 1 0.00372 1 0.41756 1 0.0391 1 0.2209 1 0.1216 1 0.085749 1 5p loss 46 (25%) 138 0.00028 0.165 9.9999e-06 0.0064 0.0051299 1 0.03566 1 7.9999e-05 0.0483 2e-05 0.0125 0.00026 0.154 4e-05 0.0245 5q loss 86 (47%) 98 0.01943 1 0.0089699 1 0.092109 1 0.68133 1 0.02015 1 0.11342 1 0.21067 1 0.092499 1 6p loss 39 (21%) 145 0.33903 1 0.62108 1 0.076089 1 0.66677 1 0.36935 1 0.36596 1 0.8607 1 0.46213 1 6q loss 39 (21%) 145 0.33436 1 0.66181 1 0.27314 1 0.45606 1 0.48822 1 0.67972 1 0.83072 1 0.27477 1 7p loss 13 (7%) 171 0.81743 1 0.5545 1 0.0084299 1 0.22137 1 0.57773 1 0.58619 1 0.30067 1 0.6488 1 7q loss 22 (12%) 162 0.17324 1 0.33683 1 0.04855 1 0.88462 1 0.58502 1 0.85831 1 0.22725 1 0.80407 1 8p loss 63 (34%) 121 0.00468 1 0.46321 1 0.88947 1 0.70983 1 0.30893 1 0.5944 1 0.38705 1 0.30592 1 8q loss 23 (12%) 161 0.78112 1 1 1 0.98101 1 0.45657 1 0.82389 1 0.25823 1 0.71332 1 1 1 9p loss 101 (55%) 83 0.089019 1 0.11274 1 0.051859 1 0.17551 1 0.52909 1 0.56882 1 0.7848 1 0.54309 1 9q loss 65 (35%) 119 0.063309 1 0.17793 1 0.83753 1 0.44554 1 0.6475 1 0.23029 1 0.068569 1 0.79533 1 10p loss 50 (27%) 134 0.00193 1 0.00446 1 0.059869 1 0.11231 1 0.00211 1 0.0081099 1 0.01248 1 0.00239 1 10q loss 49 (27%) 135 6.9999e-05 0.0424 0.00103 0.588 0.096009 1 0.02777 1 0.00161 0.91 0.0023 1 0.0169 1 0.00173 0.974 11p loss 52 (28%) 132 0.10049 1 0.22777 1 0.76006 1 0.40504 1 0.9012 1 0.65136 1 0.82214 1 0.76987 1 11q loss 58 (32%) 126 0.00052999 0.308 0.04269 1 0.36151 1 0.059119 1 0.01431 1 0.13327 1 0.077139 1 0.068189 1 12p loss 33 (18%) 151 0.097089 1 0.00102 0.583 0.02841 1 0.0011 0.627 0.00266 1 0.00199 1 0.01428 1 0.00022 0.13 12q loss 31 (17%) 153 0.16504 1 0.0027 1 0.074659 1 0.01347 1 0.02464 1 0.01242 1 0.0090499 1 0.0070899 1 13q loss 67 (36%) 117 0.01628 1 0.066409 1 0.24917 1 0.04807 1 0.04311 1 0.14791 1 0.058409 1 0.1048 1 14q loss 45 (24%) 139 0.00053999 0.313 0.00497 1 0.00216 1 0.00254 1 0.02937 1 0.00305 1 0.03706 1 0.00099999 0.573 15q loss 57 (31%) 127 0.28503 1 0.02996 1 0.25942 1 0.50889 1 0.096929 1 0.0055599 1 0.32271 1 0.00080999 0.467 16p loss 54 (29%) 130 0.00048 0.279 0.00014 0.084 0.00204 1 0.00032 0.188 0.00024 0.142 0.00016 0.0957 0.00032 0.188 0.00013 0.0781 16q loss 53 (29%) 131 9.9999e-06 0.0064 2e-05 0.0125 0.00041 0.239 0.00015 0.0898 9.9999e-06 0.0064 3e-05 0.0185 9.9999e-06 0.0064 9.9999e-06 0.0064 17p loss 71 (39%) 113 0.00237 1 9.9999e-05 0.0603 0.00323 1 0.00165 0.931 9.9999e-06 0.0064 0.00131 0.741 0.062029 1 0.00011 0.0662 17q loss 25 (14%) 159 0.79168 1 0.60544 1 0.87062 1 0.92015 1 0.51638 1 0.88813 1 0.36286 1 0.86795 1 18p loss 71 (39%) 113 0.0121 1 0.00090999 0.522 0.22215 1 0.04172 1 0.00115 0.653 0.02333 1 0.02505 1 0.0058099 1 18q loss 102 (55%) 82 0.097449 1 0.01138 1 0.11807 1 0.23678 1 0.02132 1 0.00229 1 0.04738 1 0.00035 0.205 19p loss 65 (35%) 119 0.04912 1 0.39272 1 0.21916 1 0.23572 1 0.062289 1 0.12131 1 0.095679 1 0.0094299 1 19q loss 52 (28%) 132 0.00451 1 0.11148 1 0.30674 1 0.060189 1 0.059439 1 0.093499 1 0.01882 1 0.0090899 1 20p loss 19 (10%) 165 0.58215 1 0.85838 1 0.55474 1 0.18968 1 0.59769 1 0.41894 1 0.68664 1 0.48011 1 20q loss 8 (4%) 176 0.89911 1 0.7042 1 0.26521 1 0.3168 1 1 1 0.67424 1 0.74685 1 0.44463 1 21q loss 106 (58%) 78 0.03135 1 0.0059999 1 0.058789 1 0.25752 1 0.02065 1 0.14671 1 0.04249 1 0.085119 1 22q loss 72 (39%) 112 5e-05 0.0305 9.9999e-06 0.0064 0.01982 1 0.087189 1 5.9999e-05 0.0364 0.00016 0.0957 3e-05 0.0185 2e-05 0.0125 xq loss 43 (23%) 141 0.01524 1 0.03141 1 0.27237 1 0.12285 1 0.16742 1 0.00061999 0.358 0.03524 1 0.01461 1