Molecular subtypes 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 Peak 1(2q33.1) 0 (0%) 344 0.1662 1 0.03648 1 0.0016499 0.848 0.053973 1 0.053959 1 0.065226 1 0.014146 1 0.033887 1 0.22359 1 0.099021 1 0.19138 1 0.34269 1 Amp Peak 2(5p13.2) 0 (0%) 344 0.37964 1 0.26756 1 2.9315e-05 0.0183 0.595 1 0.0059496 1 0.72358 1 0.034271 1 0.0018214 0.934 0.78782 1 0.10104 1 0.047819 1 0.50732 1 Amp Peak 3(5q22.3) 0 (0%) 386 0.91546 1 0.67706 1 0.0087257 1 0.79842 1 0.38469 1 0.49402 1 0.15194 1 0.0105 1 0.90186 1 1 1 0.15302 1 0.41735 1 Amp Peak 4(6p21.1) 0 (0%) 335 0.19559 1 0.00019134 0.113 8.9435e-10 6.03e-07 0.037415 1 0.50519 1 0.17797 1 0.022631 1 0.00042596 0.241 0.85841 1 0.16528 1 0.0014854 0.771 0.70517 1 Amp Peak 5(8p11.23) 0 (0%) 277 0.30155 1 0.12557 1 3.1251e-25 2.33e-22 0.52176 1 0.65215 1 0.73292 1 0.49141 1 0.17906 1 0.28776 1 0.36641 1 0.31875 1 0.97818 1 Amp Peak 6(8p11.21) 0 (0%) 248 0.44438 1 0.071551 1 3.212e-19 2.36e-16 0.38589 1 0.15189 1 0.0067242 1 0.54057 1 0.12387 1 0.63472 1 0.50252 1 0.26932 1 0.65832 1 Amp Peak 7(8q12.1) 0 (0%) 206 0.48918 1 0.03894 1 2.4134e-20 1.78e-17 0.0029872 1 0.0058962 1 0.00068034 0.373 0.012717 1 0.005175 1 0.37789 1 0.6392 1 0.00057624 0.318 0.073573 1 Amp Peak 8(8q24.21) 0 (0%) 181 0.56255 1 0.068545 1 7.4214e-21 5.51e-18 0.00033879 0.193 0.029401 1 0.010384 1 0.0054993 1 0.012384 1 0.77052 1 0.40277 1 0.00085388 0.46 0.053491 1 Amp Peak 9(11p15.5) 0 (0%) 338 6.0906e-06 0.0039 0.00034266 0.195 9.3466e-06 0.00594 8.7634e-06 0.00558 0.0027971 1 0.0035797 1 0.0018614 0.953 0.00046053 0.258 0.18215 1 7.6223e-05 0.0463 0.0015694 0.81 1.9976e-05 0.0126 Amp Peak 10(12p13.33) 0 (0%) 323 0.5373 1 0.80075 1 0.00017616 0.104 0.2346 1 0.42598 1 0.95827 1 0.34278 1 0.92478 1 0.50286 1 0.82738 1 0.67708 1 0.55258 1 Amp Peak 11(13q12.13) 0 (0%) 167 1.577e-06 0.00103 2.0686e-06 0.00134 3.212e-32 2.4e-29 1.4101e-05 0.00891 0.0049119 1 0.012395 1 1.0716e-06 7e-04 2.7458e-09 1.85e-06 0.56276 1 0.018109 1 2.8289e-07 0.000188 0.69203 1 Amp Peak 12(13q22.1) 0 (0%) 163 0.00058589 0.323 4.414e-05 0.0273 7.9922e-31 5.97e-28 8.2809e-06 0.00529 0.014763 1 0.044448 1 1.3089e-06 0.000853 2.8733e-08 1.92e-05 0.44973 1 0.033169 1 4.3318e-06 0.00279 0.97842 1 Amp Peak 13(16p11.2) 0 (0%) 310 0.0011376 0.597 0.00012925 0.0774 1.4379e-19 1.06e-16 0.021965 1 0.021844 1 0.033031 1 0.0010138 0.534 0.00025576 0.148 0.93273 1 0.0025721 1 0.00048759 0.272 0.42646 1 Amp Peak 14(16q12.1) 0 (0%) 324 0.00012622 0.0757 2.5321e-05 0.0159 1.5199e-20 1.12e-17 0.049905 1 0.082016 1 0.081003 1 0.00047884 0.268 3.6924e-05 0.0229 0.96278 1 0.00019149 0.113 0.00015452 0.0919 0.24073 1 Amp Peak 15(17q12) 0 (0%) 323 0.053798 1 0.074958 1 4.154e-08 2.77e-05 0.00051749 0.287 0.13126 1 0.002762 1 0.00079012 0.427 0.0032309 1 0.037591 1 0.17584 1 0.028226 1 0.28671 1 Amp Peak 16(17q24.1) 0 (0%) 332 0.050372 1 0.026313 1 3.3921e-10 2.31e-07 0.00034115 0.194 0.057919 1 0.0052735 1 0.00055107 0.305 0.00030631 0.175 0.0091629 1 0.21329 1 0.034465 1 0.14661 1 Amp Peak 17(19p13.2) 0 (0%) 359 0.067369 1 0.026322 1 0.00070651 0.386 0.053293 1 0.69702 1 0.34131 1 0.34444 1 0.1238 1 0.36433 1 0.018033 1 0.016993 1 0.33461 1 Amp Peak 18(19q13.11) 0 (0%) 342 0.18149 1 0.023215 1 0.0040877 1 0.16089 1 0.054455 1 0.68839 1 0.084064 1 0.012241 1 0.46639 1 0.097054 1 0.048104 1 0.26967 1 Amp Peak 19(20p11.23) 0 (0%) 219 0.093267 1 0.00072535 0.396 9.0149e-11 6.18e-08 0.07668 1 0.005945 1 0.18646 1 0.0002459 0.142 0.000272 0.157 0.45257 1 0.084633 1 0.0019845 1 0.97951 1 Amp Peak 20(20q11.21) 0 (0%) 121 3.8669e-10 2.63e-07 7.2759e-12 5.1e-09 5.0588e-42 3.8e-39 1.9088e-12 1.35e-09 0.00072959 0.398 0.0001082 0.0652 2.4017e-15 1.74e-12 3.4135e-17 2.49e-14 0.82122 1 0.00010282 0.0621 2.1757e-12 1.53e-09 0.14253 1 Amp Peak 21(20q12) 0 (0%) 120 4.2898e-11 2.97e-08 4.9875e-12 3.51e-09 1.7404e-41 1.31e-38 1.6818e-11 1.17e-08 0.00051213 0.285 2.1772e-05 0.0137 3.8776e-14 2.79e-11 2.598e-16 1.89e-13 0.77421 1 0.00012497 0.0751 1.9449e-13 1.38e-10 0.14044 1 Amp Peak 22(20q13.12) 0 (0%) 117 3.8669e-10 2.63e-07 7.2759e-12 5.1e-09 3.6289e-41 2.72e-38 3.7239e-11 2.58e-08 0.00023726 0.138 1.2964e-05 0.00821 1.6157e-13 1.15e-10 1.2741e-15 9.26e-13 0.78973 1 0.00028029 0.161 5.8419e-13 4.13e-10 0.16252 1 Del Peak 1(1p36.11) 0 (0%) 275 0.0001499 0.0893 0.0024656 1 1.8241e-13 1.3e-10 6.0751e-05 0.0373 0.0056678 1 0.023791 1 3.9826e-05 0.0247 3.2897e-05 0.0205 0.45046 1 0.016992 1 0.0001564 0.0929 0.0027889 1 Del Peak 2(1p33) 0 (0%) 319 0.022296 1 0.37616 1 1.1224e-08 7.54e-06 0.0014144 0.737 0.45492 1 0.39484 1 0.011208 1 0.0047695 1 0.60079 1 0.0015373 0.795 0.0064173 1 0.00095487 0.509 Del Peak 3(2q37.2) 0 (0%) 406 0.80481 1 0.06518 1 0.65577 1 0.28827 1 0.36673 1 0.20827 1 0.94394 1 0.1674 1 0.24498 1 0.3595 1 1 1 0.78723 1 Del Peak 4(3p26.1) 0 (0%) 365 0.39928 1 0.28114 1 4.0518e-05 0.0251 0.093702 1 0.85203 1 0.86062 1 0.19919 1 0.012701 1 0.68558 1 0.10523 1 0.0015109 0.783 0.55826 1 Del Peak 5(3p14.2) 0 (0%) 349 0.55416 1 0.5557 1 0.0079839 1 0.41752 1 0.63089 1 0.28971 1 0.23632 1 0.02545 1 0.45639 1 0.76139 1 0.0053308 1 0.64536 1 Del Peak 6(3q26.31) 0 (0%) 385 0.55869 1 0.6459 1 0.005542 1 0.24565 1 0.49718 1 0.36887 1 0.11317 1 0.23983 1 0.31961 1 0.56934 1 0.0096767 1 0.018678 1 Del Peak 7(4p16.1) 0 (0%) 301 0.00073261 0.399 0.0039661 1 1.1052e-12 7.8e-10 0.002336 1 0.02217 1 0.086565 1 3.1723e-06 0.00205 2.5604e-07 0.00017 0.38144 1 0.054167 1 0.00022943 0.134 0.51069 1 Del Peak 8(4q22.1) 0 (0%) 295 0.00038307 0.218 0.0021429 1 1.3784e-13 9.83e-11 0.00021239 0.124 0.071993 1 0.3912 1 3.9145e-06 0.00252 7.2092e-07 0.000472 0.45532 1 0.012861 1 0.00098366 0.521 0.31294 1 Del Peak 9(4q35.1) 0 (0%) 285 0.00098011 0.52 0.0036347 1 3.7396e-15 2.71e-12 1.2806e-05 0.00812 0.01462 1 0.14569 1 1.5033e-05 0.00949 2.0489e-05 0.0129 0.35088 1 0.028636 1 5.9287e-06 0.00381 0.6402 1 Del Peak 10(5q11.2) 0 (0%) 333 0.0011455 0.6 0.0012669 0.663 8.1713e-10 5.52e-07 0.023082 1 0.00085547 0.46 0.011758 1 4.767e-05 0.0294 7.0931e-05 0.0433 0.59353 1 0.36636 1 0.00027288 0.157 0.51056 1 Del Peak 11(5q21.3) 0 (0%) 307 0.066081 1 0.010456 1 2.2702e-11 1.58e-08 0.0094353 1 0.032927 1 0.097134 1 0.001472 0.765 0.00087002 0.466 0.93273 1 0.71828 1 0.028198 1 0.14986 1 Del Peak 12(5q23.1) 0 (0%) 317 0.049729 1 0.024219 1 7.913e-11 5.46e-08 0.02337 1 0.0089538 1 0.15032 1 0.00023063 0.134 9.5916e-05 0.058 0.87344 1 0.79166 1 0.0038576 1 0.2684 1 Del Peak 13(6p25.3) 0 (0%) 373 0.85206 1 0.75574 1 0.021095 1 0.077236 1 0.059517 1 0.82828 1 0.66566 1 0.36981 1 0.74623 1 0.45018 1 0.11773 1 0.5844 1 Del Peak 14(6q26) 0 (0%) 367 0.52444 1 0.25765 1 0.2272 1 0.37974 1 0.14028 1 0.35544 1 0.65469 1 0.72646 1 0.71546 1 0.10618 1 0.32064 1 0.42266 1 Del Peak 15(7q31.1) 0 (0%) 416 1 1 0.50446 1 0.36612 1 0.79722 1 0.27795 1 0.21886 1 0.51043 1 0.13107 1 0.92307 1 0.61883 1 0.87708 1 0.83701 1 Del Peak 16(8p23.3) 0 (0%) 251 0.0114 1 6.7612e-05 0.0414 6.5167e-21 4.84e-18 3.2073e-07 0.000212 0.0045305 1 0.00096002 0.511 0.00053359 0.296 2.7188e-06 0.00176 0.21834 1 0.15188 1 2.1463e-07 0.000143 0.33116 1 Del Peak 17(8p22) 0 (0%) 237 0.0026359 1 0.00017392 0.103 2.7831e-26 2.08e-23 4.1286e-08 2.76e-05 0.0079918 1 0.00013004 0.0778 5.2354e-05 0.0323 3.4143e-06 0.00221 0.48541 1 0.29814 1 3.3394e-07 0.000221 0.38566 1 Del Peak 18(8p11.22) 0 (0%) 344 0.40242 1 0.13666 1 6.2555e-10 4.25e-07 0.038434 1 0.013947 1 0.0053364 1 0.077949 1 0.0066236 1 0.81353 1 0.14776 1 0.015078 1 0.048096 1 Del Peak 19(8p11.21) 0 (0%) 383 0.025124 1 0.35468 1 6.2605e-07 0.000411 0.60396 1 0.051544 1 0.023976 1 0.34226 1 0.018799 1 0.34282 1 0.17366 1 0.084419 1 0.28711 1 Del Peak 20(9p21.3) 0 (0%) 370 0.56319 1 0.092338 1 0.00049531 0.276 0.17826 1 0.69037 1 0.21374 1 0.15474 1 0.15193 1 0.72658 1 0.68491 1 0.071418 1 0.68385 1 Del Peak 21(10p15.3) 0 (0%) 358 0.11537 1 0.10212 1 1.051e-06 0.000687 0.012959 1 0.02422 1 0.10361 1 0.067372 1 0.0073463 1 0.63006 1 0.005466 1 0.0053308 1 0.35468 1 Del Peak 22(10q21.1) 0 (0%) 343 0.0033499 1 0.0088778 1 7.5454e-10 5.11e-07 0.083382 1 0.037111 1 0.1442 1 0.077949 1 0.044655 1 0.97078 1 0.1578 1 0.0070509 1 0.74525 1 Del Peak 23(10q23.31) 0 (0%) 330 0.14631 1 0.030629 1 1.6792e-07 0.000112 0.06491 1 0.093035 1 0.37531 1 0.013712 1 0.10869 1 0.74457 1 0.025399 1 0.00077426 0.42 0.45267 1 Del Peak 24(10q25.2) 0 (0%) 332 0.12516 1 0.0018686 0.955 8.8917e-11 6.11e-08 0.0049848 1 0.0033742 1 0.31933 1 0.00098217 0.521 0.00092245 0.493 0.92196 1 0.10444 1 1.274e-05 0.00809 0.80632 1 Del Peak 25(13q14.13) 0 (0%) 409 0.27462 1 0.87599 1 0.16614 1 0.17954 1 0.23951 1 0.33969 1 0.21081 1 1 1 0.68792 1 0.90489 1 0.6324 1 0.78723 1 Del Peak 26(14q32.11) 0 (0%) 292 1.5759e-06 0.00103 3.2345e-05 0.0202 1.6725e-21 1.24e-18 0.00029353 0.168 0.00019928 0.117 0.023608 1 0.00075688 0.411 7.3841e-05 0.045 0.16401 1 0.00016977 0.101 6.7787e-05 0.0415 0.14066 1 Del Peak 27(15q11.2) 0 (0%) 264 0.00046819 0.262 0.0015862 0.817 8.0746e-21 5.98e-18 0.0044229 1 0.041495 1 0.070002 1 5.0996e-06 0.00328 6.058e-07 0.000399 0.99008 1 0.0039433 1 5.7652e-05 0.0355 0.91683 1 Del Peak 28(15q21.1) 0 (0%) 274 0.026089 1 0.014205 1 3.0627e-17 2.24e-14 0.0042392 1 0.0095886 1 0.065717 1 1.5602e-05 0.00983 6.8088e-07 0.000447 0.81518 1 0.0021928 1 0.00042812 0.241 0.95533 1 Del Peak 29(15q22.33) 0 (0%) 279 0.00027283 0.157 0.00083457 0.451 8.8931e-20 6.56e-17 0.00013586 0.0811 0.043573 1 0.051164 1 3.8197e-07 0.000252 1.768e-08 1.19e-05 0.68666 1 8.9101e-05 0.054 0.00011918 0.0717 0.33348 1 Del Peak 30(16p13.3) 0 (0%) 381 0.30298 1 0.33778 1 0.24923 1 0.26081 1 0.36703 1 0.91317 1 0.090067 1 0.16497 1 0.93001 1 0.56274 1 0.14607 1 0.37471 1 Del Peak 31(16q23.1) 0 (0%) 376 0.2692 1 0.0060782 1 0.25524 1 0.26823 1 0.15371 1 0.8211 1 0.29262 1 0.021836 1 0.59105 1 0.70808 1 1 1 0.75774 1 Del Peak 32(17p12) 0 (0%) 192 2.4712e-08 1.66e-05 4.9672e-07 0.000327 3.5316e-33 2.65e-30 1.0761e-10 7.37e-08 0.0072585 1 7.4152e-05 0.0451 3.8325e-11 2.66e-08 3.3107e-11 2.3e-08 0.59681 1 0.026059 1 8.1347e-11 5.6e-08 0.025952 1 Del Peak 33(17q24.3) 0 (0%) 366 0.095566 1 0.70732 1 0.016593 1 0.0084867 1 0.7296 1 0.33768 1 0.02778 1 0.029256 1 0.79817 1 0.66426 1 0.020915 1 0.16206 1 Del Peak 34(18p11.31) 0 (0%) 198 6.8701e-12 4.82e-09 7.4913e-10 5.08e-07 3.1076e-44 2.34e-41 4.1423e-15 2.99e-12 0.0004203 0.238 0.0010422 0.548 5.0587e-18 3.71e-15 7.5416e-18 5.53e-15 0.87592 1 0.0025041 1 6.5037e-14 4.67e-11 0.018794 1 Del Peak 35(18q12.2) 0 (0%) 171 1.0946e-11 7.65e-09 2.6611e-10 1.82e-07 7.3414e-47 5.54e-44 1.2432e-17 9.1e-15 0.0022411 1 0.00042101 0.238 2.2197e-17 1.62e-14 1.4332e-18 1.05e-15 0.94286 1 0.002721 1 9.8992e-15 7.15e-12 0.10555 1 Del Peak 36(18q21.2) 0 (0%) 158 3.369e-11 2.34e-08 1.4584e-10 9.98e-08 1.1974e-44 9.03e-42 6.6031e-14 4.73e-11 0.0010032 0.53 0.00022543 0.132 3.5592e-13 2.52e-10 1.0594e-13 7.59e-11 0.44378 1 0.070355 1 1.3773e-13 9.83e-11 0.066351 1 Del Peak 37(18q22.1) 0 (0%) 158 8.7582e-11 6.03e-08 8.3418e-10 5.63e-07 3.7566e-47 2.84e-44 3.7452e-14 2.7e-11 0.002469 1 0.00022425 0.131 3.5592e-13 2.52e-10 1.0594e-13 7.59e-11 0.58395 1 0.04905 1 3.4999e-14 2.52e-11 0.064384 1 Del Peak 38(19p13.3) 0 (0%) 369 0.13094 1 0.038528 1 0.00086551 0.465 0.34172 1 0.98102 1 0.067586 1 0.035468 1 0.017858 1 0.44628 1 0.55071 1 0.021363 1 0.14961 1 Del Peak 39(20p12.1) 0 (0%) 347 0.04837 1 0.2029 1 7.2266e-06 0.00463 0.00045504 0.256 0.66829 1 0.27812 1 0.0021232 1 7.0931e-05 0.0433 0.13509 1 0.12195 1 0.0050283 1 0.1577 1 Del Peak 40(21q11.2) 0 (0%) 297 0.02638 1 0.038738 1 5.9487e-11 4.11e-08 0.028947 1 0.1819 1 0.45498 1 0.000607 0.334 0.00065117 0.357 0.90469 1 0.12034 1 0.00018406 0.109 0.15065 1 Del Peak 41(22q13.32) 0 (0%) 282 0.00089249 0.477 0.00023215 0.135 4.0655e-15 2.94e-12 0.0013697 0.715 0.07922 1 0.21849 1 0.00045745 0.257 2.8059e-05 0.0175 0.38009 1 0.0026329 1 8.3327e-06 0.00532 0.47396 1