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 Chi-square test_P Chi-square test_Q Fisher's exact test_P Fisher's exact test_Q Chi-square test_P Chi-square test_Q Fisher's exact test_P Fisher's exact test_Q 1p gain 9 (3%) 322 0.0015642 0.984 0.070014 1 0.041065 1 0.49508 1 0.10419 1 0.10583 1 0.44201 1 0.17237 1 0.42233 1 0.54525 1 1q gain 15 (5%) 316 3.5015e-05 0.0234 0.0055483 1 0.022254 1 0.22387 1 0.012732 1 0.0043071 1 0.24124 1 0.4192 1 0.52385 1 1 1 2p gain 4 (1%) 327 0.26841 1 0.10766 1 NA NA NA NA 0.39435 1 0.32555 1 0.82036 1 0.83156 1 0.33536 1 1 1 2q gain 3 (1%) 328 0.11729 1 0.38253 1 NA NA NA NA 0.77852 1 0.63714 1 0.53465 1 0.54541 1 0.12548 1 0.74017 1 3p gain 23 (7%) 308 4.2604e-06 0.00288 0.011782 1 0.21897 1 0.83762 1 0.24706 1 0.21455 1 0.80188 1 0.89183 1 0.73053 1 0.62257 1 3q gain 31 (9%) 300 6.4571e-08 4.41e-05 0.058579 1 0.083941 1 0.43354 1 0.041303 1 0.1114 1 0.6247 1 0.43157 1 0.27177 1 0.38942 1 4p gain 5 (2%) 326 0.163 1 0.33004 1 NA NA NA NA 0.32805 1 1 1 0.77779 1 0.76629 1 0.84192 1 0.48445 1 4q gain 4 (1%) 327 0.26841 1 0.31603 1 NA NA NA NA 0.21066 1 1 1 0.47179 1 0.91537 1 0.86138 1 0.89476 1 5p gain 9 (3%) 322 4.8035e-05 0.0319 0.070014 1 0.29809 1 0.38677 1 0.09341 1 0.39915 1 0.20931 1 0.085742 1 0.14164 1 0.67769 1 5q gain 7 (2%) 324 0.00083773 0.537 0.12203 1 NA NA NA NA 0.18267 1 0.63268 1 0.18362 1 0.40192 1 0.17828 1 0.82748 1 6p gain 3 (1%) 328 0.077945 1 0.38253 1 NA NA NA NA 0.11176 1 0.63714 1 0.61243 1 0.35245 1 0.60344 1 0.86505 1 7p gain 58 (18%) 273 1.775e-09 1.22e-06 5.1809e-08 3.54e-05 0.54135 1 0.66257 1 4.0267e-05 0.0269 0.0034301 1 0.21007 1 0.081332 1 0.15624 1 0.90878 1 7q gain 56 (17%) 275 9.2312e-09 6.35e-06 2.7461e-08 1.88e-05 0.58591 1 0.55136 1 5.9935e-05 0.0397 0.0047803 1 0.23319 1 0.26424 1 0.10976 1 0.92665 1 8p gain 38 (11%) 293 4.0104e-10 2.77e-07 9.2162e-06 0.0062 0.0051135 1 0.019326 1 0.018682 1 0.024499 1 0.10262 1 0.12078 1 0.022266 1 0.48015 1 8q gain 67 (20%) 264 2.5057e-12 1.73e-09 1.1304e-05 0.0076 0.0021608 1 0.0074558 1 0.00043405 0.283 0.00062475 0.404 0.00088766 0.566 0.044099 1 0.0009462 0.603 0.23908 1 9p gain 13 (4%) 318 2.4332e-05 0.0163 0.3506 1 0.48418 1 0.19994 1 0.29695 1 0.68036 1 0.50559 1 0.74564 1 0.42417 1 0.39028 1 9q gain 26 (8%) 305 1.6252e-10 1.12e-07 0.082216 1 0.028107 1 0.011234 1 0.0088378 1 0.071283 1 0.11295 1 0.086443 1 0.20645 1 0.3607 1 10p gain 8 (2%) 323 0.0039287 1 0.31455 1 0.78437 1 0.63505 1 0.60362 1 0.39795 1 0.024822 1 0.0085384 1 0.22096 1 0.019559 1 10q gain 9 (3%) 322 0.0015642 0.984 0.36231 1 0.040303 1 0.037622 1 0.48378 1 0.24614 1 0.22729 1 0.20973 1 0.53841 1 0.31434 1 11p gain 11 (3%) 320 0.00097447 0.62 0.16421 1 0.76789 1 0.58549 1 0.057007 1 0.34659 1 0.98437 1 0.71079 1 0.83564 1 0.76621 1 11q gain 11 (3%) 320 0.00097447 0.62 0.16421 1 0.76789 1 0.58549 1 0.057007 1 0.34659 1 0.98437 1 0.71079 1 0.83564 1 0.76621 1 12p gain 5 (2%) 326 0.0063183 1 0.037931 1 NA NA NA NA 0.16598 1 0.38529 1 0.59783 1 0.52505 1 0.15634 1 0.92779 1 12q gain 8 (2%) 323 0.00023045 0.151 0.019142 1 0.84816 1 0.86319 1 0.079488 1 0.74728 1 0.49228 1 0.86139 1 0.62096 1 0.61222 1 13q gain 4 (1%) 327 0.1806 1 0.31603 1 NA NA NA NA 0.21066 1 0.4606 1 0.76207 1 0.26325 1 0.33536 1 0.89476 1 14q gain 6 (2%) 325 0.007945 1 0.080492 1 0.78437 1 0.63505 1 0.25042 1 0.21373 1 0.60657 1 0.12693 1 0.037503 1 0.88757 1 15q gain 4 (1%) 327 0.1806 1 1 1 NA NA NA NA 0.83744 1 0.20567 1 0.6072 1 0.3223 1 0.83142 1 0.4001 1 16p gain 15 (5%) 316 0.0027027 1 0.23308 1 0.52084 1 0.3895 1 0.21793 1 0.015705 1 0.06963 1 0.13618 1 0.097701 1 0.12709 1 16q gain 5 (2%) 326 0.42075 1 0.86268 1 0.67723 1 0.46645 1 0.53236 1 0.63484 1 0.59751 1 0.66979 1 0.77263 1 0.55911 1 17p gain 3 (1%) 328 0.54309 1 0.056065 1 NA NA NA NA 1 1 0.1961 1 0.83389 1 1 1 0.95469 1 1 1 17q gain 5 (2%) 326 0.058891 1 0.5258 1 0.47143 1 0.63505 1 1 1 0.85777 1 0.91869 1 1 1 0.77263 1 0.52068 1 18p gain 10 (3%) 321 0.00058656 0.381 0.85421 1 1 1 0.56384 1 0.28171 1 0.92348 1 0.92137 1 0.84317 1 0.84278 1 0.93601 1 18q gain 5 (2%) 326 0.0063183 1 1 1 1 1 0.38478 1 0.38463 1 0.53502 1 0.55634 1 0.52505 1 0.61849 1 0.92779 1 19p gain 4 (1%) 327 0.017378 1 0.31603 1 NA NA NA NA 0.019942 1 0.038369 1 0.61243 1 0.35245 1 0.56404 1 0.64509 1 19q gain 5 (2%) 326 0.0063183 1 0.33004 1 0.78437 1 0.63505 1 0.080881 1 0.013047 1 0.54449 1 0.26325 1 0.285 1 0.31544 1 20p gain 11 (3%) 320 0.010594 1 0.021575 1 0.37099 1 0.1451 1 0.062077 1 0.033594 1 0.20154 1 0.72751 1 0.0091213 1 0.19379 1 20q gain 13 (4%) 318 0.014461 1 0.028644 1 0.41799 1 0.48939 1 0.21149 1 0.34126 1 0.35366 1 0.57827 1 0.26523 1 0.44572 1 21q gain 9 (3%) 322 4.8035e-05 0.0319 0.070014 1 0.44456 1 0.32596 1 0.10419 1 0.10583 1 0.13457 1 0.13964 1 0.1362 1 0.14171 1 xq gain 3 (1%) 328 0.077945 1 0.38253 1 NA NA NA NA 0.77852 1 0.78016 1 0.13625 1 0.54541 1 0.12548 1 0.41202 1 1p loss 9 (3%) 322 0.0015642 0.984 0.070014 1 0.25549 1 0.15469 1 0.09341 1 0.026279 1 0.18198 1 0.02722 1 0.19008 1 0.27229 1 2p loss 6 (2%) 325 0.007945 1 0.21991 1 NA NA NA NA 0.28873 1 0.079798 1 0.63589 1 0.47573 1 0.23814 1 0.50918 1 2q loss 8 (2%) 323 0.00070549 0.456 0.35509 1 NA NA NA NA 0.60362 1 0.11326 1 0.44454 1 0.21747 1 0.14764 1 0.30093 1 3p loss 5 (2%) 326 0.058891 1 0.15778 1 NA NA NA NA 0.080881 1 0.19682 1 0.40921 1 0.075559 1 0.51066 1 0.49817 1 3q loss 3 (1%) 328 0.54309 1 0.63472 1 NA NA NA NA 0.64152 1 0.78016 1 NA NA NA NA NA NA NA NA 4p loss 10 (3%) 321 0.00058656 0.381 0.25875 1 0.29809 1 1 1 0.075968 1 0.093339 1 0.024945 1 0.00017675 0.116 0.24452 1 0.23544 1 4q loss 6 (2%) 325 0.035143 1 0.58855 1 0.78437 1 0.38478 1 0.25042 1 0.21373 1 0.35728 1 0.2553 1 0.48582 1 0.50918 1 5p loss 5 (2%) 326 0.0063183 1 0.23083 1 0.78437 1 1 1 0.32805 1 0.013047 1 0.82036 1 0.83156 1 0.86138 1 1 1 5q loss 9 (3%) 322 4.8035e-05 0.0319 0.36231 1 0.25549 1 0.15469 1 0.36117 1 0.24614 1 0.26462 1 0.15421 1 0.75179 1 0.42384 1 6p loss 11 (3%) 320 0.00025905 0.17 0.0047851 1 0.25549 1 0.15469 1 0.0015625 0.984 2.978e-05 0.02 0.35087 1 0.2621 1 0.63915 1 0.70245 1 6q loss 20 (6%) 311 7.4101e-06 0.00499 0.00084593 0.541 0.076129 1 0.50153 1 0.0012615 0.796 0.0007295 0.47 0.32685 1 0.012726 1 0.19093 1 0.51042 1 8p loss 104 (31%) 227 0.00027909 0.182 1.2154e-08 8.35e-06 0.54279 1 0.90364 1 2.9852e-05 0.02 8.5418e-05 0.0564 0.00021766 0.143 0.36871 1 0.0047138 1 0.80659 1 8q loss 10 (3%) 321 0.035792 1 0.15964 1 0.84463 1 0.85055 1 0.0096251 1 0.0052019 1 0.26275 1 0.44437 1 0.081609 1 0.015507 1 9p loss 14 (4%) 317 0.0010066 0.638 0.61956 1 0.085491 1 0.34847 1 0.12782 1 0.075382 1 0.10086 1 0.5011 1 0.10414 1 0.49484 1 9q loss 5 (2%) 326 0.058891 1 0.45142 1 0.44456 1 0.86319 1 0.10693 1 1 1 0.49935 1 0.36568 1 0.84192 1 0.68914 1 10p loss 22 (7%) 309 2.7777e-07 0.000189 0.00026287 0.172 0.0068249 1 0.03105 1 0.0001624 0.107 0.00027112 0.177 0.16422 1 0.00079751 0.512 0.32835 1 0.28202 1 10q loss 24 (7%) 307 2.3136e-08 1.59e-05 0.019642 1 0.039237 1 0.049752 1 0.029054 1 0.010847 1 0.23354 1 0.022816 1 0.028967 1 0.15505 1 12p loss 30 (9%) 301 6.2675e-05 0.0414 0.12726 1 0.1857 1 0.64669 1 0.0091845 1 0.028453 1 0.4335 1 0.20176 1 0.2059 1 0.45043 1 12q loss 12 (4%) 319 0.0007586 0.488 0.34369 1 0.29692 1 0.49508 1 0.199 1 0.13435 1 0.46412 1 0.266 1 0.49255 1 0.90978 1 13q loss 44 (13%) 287 8.4761e-07 0.000576 0.30053 1 0.54251 1 0.5449 1 0.16305 1 0.16717 1 0.57458 1 0.061005 1 0.5716 1 0.77718 1 14q loss 13 (4%) 318 0.062431 1 0.10089 1 0.46398 1 0.34847 1 0.13611 1 0.11937 1 0.021876 1 0.032328 1 0.025773 1 0.024429 1 15q loss 19 (6%) 312 6.5948e-07 0.000449 0.017717 1 0.041296 1 0.087854 1 0.036687 1 0.031332 1 0.07686 1 0.0075478 1 0.0849 1 0.4659 1 16p loss 23 (7%) 308 0.0092411 1 0.14289 1 0.59861 1 0.59943 1 0.24706 1 0.52606 1 0.16408 1 0.154 1 0.55059 1 0.37652 1 16q loss 65 (20%) 266 1.1899e-12 8.25e-10 0.0010622 0.672 0.49169 1 0.2994 1 0.0046715 1 0.010971 1 0.042612 1 0.0049317 1 0.079315 1 0.33893 1 17p loss 44 (13%) 287 9.892e-13 6.87e-10 0.0093074 1 0.0034438 1 0.014101 1 0.00083885 0.537 4.1158e-05 0.0274 0.17389 1 0.0027298 1 0.063557 1 0.46214 1 17q loss 8 (2%) 323 0.00070549 0.456 0.01232 1 0.4517 1 0.31352 1 0.10074 1 0.068416 1 0.47139 1 0.021329 1 0.19008 1 0.27229 1 18p loss 41 (12%) 290 6.7379e-06 0.00455 0.0073175 1 0.063325 1 0.079442 1 0.021023 1 0.019317 1 0.27365 1 0.29138 1 0.097251 1 0.080962 1 18q loss 61 (18%) 270 9.2046e-07 0.000625 0.027403 1 0.015976 1 0.018818 1 0.0069098 1 0.00060688 0.393 0.36622 1 0.058025 1 0.21034 1 0.18794 1 19p loss 11 (3%) 320 0.010594 1 0.68862 1 0.67723 1 1 1 0.50809 1 0.63713 1 0.22942 1 0.061598 1 0.069873 1 0.49723 1 19q loss 11 (3%) 320 0.010594 1 0.68862 1 0.67723 1 1 1 0.50809 1 0.63713 1 0.22942 1 0.061598 1 0.069873 1 0.49723 1 20p loss 12 (4%) 319 1 1 0.1101 1 0.89585 1 1 1 0.5369 1 0.53666 1 0.8851 1 0.30797 1 0.24115 1 0.085906 1 20q loss 5 (2%) 326 0.163 1 0.23083 1 1 1 1 1 0.38463 1 0.38529 1 0.52339 1 0.16931 1 0.81884 1 0.28284 1 21q loss 13 (4%) 318 0.0017533 1 0.3506 1 0.50529 1 0.44539 1 0.030775 1 0.032389 1 0.81809 1 0.4244 1 0.70081 1 0.95066 1 22q loss 24 (7%) 307 2.1645e-06 0.00147 0.056919 1 0.44243 1 0.80454 1 0.029054 1 0.0027694 1 0.35292 1 0.070881 1 0.52389 1 0.76405 1 xq loss 20 (6%) 311 2.6719e-06 0.00181 0.0011623 0.735 0.19256 1 0.2354 1 0.022574 1 0.029403 1 0.07797 1 0.011683 1 0.04991 1 0.13529 1