Molecular subtypes MRNA_CNMF MRNA_CHIERARCHICAL MIR_CNMF MIR_CHIERARCHICAL CN_CNMF METHLYATION_CNMF RPPA_CNMF RPPA_CHIERARCHICAL MRNASEQ_CNMF MRNASEQ_CHIERARCHICAL MIRSEQ_CNMF MIRSEQ_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 Chi-square test_P Chi-square 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(1p34.3) 0 (0%) 287 0.17883 1 0.84028 1 0.14802 1 0.13377 1 2.7226e-06 0.00214 0.1406 1 0.12133 1 0.7837 1 0.60208 1 0.1044 1 0.069358 1 0.092226 1 Amp Peak 2(1q21.3) 0 (0%) 213 0.21118 1 0.062143 1 0.68689 1 0.14998 1 1.5206e-11 1.24e-08 0.00020366 0.154 0.06009 1 0.0099903 1 0.62753 1 0.27957 1 0.91555 1 0.97204 1 Amp Peak 3(1q42.2) 0 (0%) 257 0.023027 1 0.03246 1 0.94062 1 0.0062983 1 5.9842e-09 4.81e-06 4.9041e-05 0.0377 0.27927 1 0.20673 1 0.61994 1 0.41838 1 0.18305 1 0.26977 1 Amp Peak 4(2p23.2) 0 (0%) 330 0.34143 1 0.026299 1 0.58209 1 0.013476 1 5.7201e-09 4.6e-06 0.0042369 1 0.2232 1 0.65841 1 0.031553 1 0.75122 1 0.91142 1 0.11482 1 Amp Peak 5(2q31.2) 0 (0%) 319 0.07789 1 0.0022168 1 0.0744 1 0.051974 1 2.1842e-11 1.78e-08 0.0018734 1 0.057514 1 0.50728 1 0.22903 1 0.52213 1 0.4562 1 0.66373 1 Amp Peak 6(3q26.2) 0 (0%) 96 0.011921 1 0.0022818 1 0.90705 1 0.43828 1 2.9029e-11 2.35e-08 0.033785 1 0.55374 1 0.55333 1 0.016628 1 0.046345 1 0.12268 1 0.43241 1 Amp Peak 7(4p16.3) 0 (0%) 413 0.95456 1 0.033828 1 0.051823 1 0.69357 1 4.242e-05 0.0327 0.0091677 1 0.24406 1 0.76876 1 0.7495 1 0.45544 1 0.6437 1 0.66442 1 Amp Peak 8(4q13.3) 0 (0%) 463 0.91362 1 0.1332 1 0.35395 1 0.17499 1 1.0636e-05 0.00831 0.1741 1 0.31225 1 0.14892 1 0.14795 1 0.93527 1 0.97634 1 0.10761 1 Amp Peak 9(5p15.33) 0 (0%) 270 0.88378 1 0.48496 1 0.62525 1 0.54024 1 1.3349e-07 0.000106 0.18573 1 0.98199 1 0.4769 1 0.17489 1 0.92737 1 0.013829 1 0.43615 1 Amp Peak 10(6p22.3) 0 (0%) 278 0.13202 1 0.015423 1 0.24948 1 0.15576 1 1.591e-08 1.27e-05 0.040777 1 0.0709 1 0.052988 1 0.83343 1 0.070896 1 0.30352 1 0.43388 1 Amp Peak 11(7q36.3) 0 (0%) 265 0.043933 1 0.51492 1 0.26209 1 0.58806 1 1.2541e-05 0.00976 0.1998 1 0.068269 1 0.24191 1 0.96189 1 0.76385 1 0.1648 1 0.14332 1 Amp Peak 12(8p11.21) 0 (0%) 367 0.10526 1 0.0024233 1 0.10195 1 0.29233 1 3.4979e-07 0.000277 0.0050604 1 0.036499 1 0.26168 1 0.35177 1 0.21615 1 0.90478 1 0.67237 1 Amp Peak 13(8q24.21) 0 (0%) 122 1.0471e-07 8.35e-05 1.2397e-05 0.00966 0.2293 1 0.0031325 1 2.3054e-17 1.9e-14 0.0058966 1 0.9599 1 0.59521 1 4.5152e-07 0.000357 2.4637e-05 0.0191 0.14209 1 0.040558 1 Amp Peak 14(10p15.3) 0 (0%) 328 0.75815 1 0.092025 1 0.069816 1 0.25513 1 2.5047e-12 2.05e-09 0.00010281 0.0781 0.56203 1 0.40842 1 0.34409 1 0.30582 1 0.46509 1 0.94504 1 Amp Peak 15(10q22.3) 0 (0%) 393 0.44257 1 0.32654 1 0.60684 1 0.060093 1 0.28461 1 0.89018 1 0.52683 1 0.9776 1 0.074943 1 0.33248 1 0.11244 1 0.15069 1 Amp Peak 16(11q14.1) 0 (0%) 318 0.0068158 1 0.090352 1 0.84677 1 0.29353 1 5.3096e-09 4.27e-06 0.012762 1 0.60018 1 0.22203 1 0.0037819 1 0.0040494 1 0.20461 1 0.82698 1 Amp Peak 17(12p13.33) 0 (0%) 251 0.036073 1 0.0032609 1 0.28986 1 0.010819 1 9.976e-11 8.08e-08 1.2841e-05 0.00998 0.31408 1 0.61446 1 0.012405 1 0.13745 1 0.31956 1 0.9209 1 Amp Peak 18(12p12.1) 0 (0%) 268 0.27314 1 0.013039 1 0.84309 1 0.096781 1 1.6345e-13 1.35e-10 2.27e-06 0.00179 0.81857 1 0.49251 1 0.021381 1 0.13261 1 0.20164 1 0.69951 1 Amp Peak 19(14q11.2) 0 (0%) 425 0.0047811 1 0.07648 1 0.32258 1 0.0014517 1 0.039303 1 0.16639 1 0.393 1 0.28794 1 0.25505 1 0.33311 1 0.2343 1 0.33494 1 Amp Peak 20(14q32.33) 0 (0%) 418 0.32852 1 0.14038 1 0.19844 1 0.82309 1 0.00027805 0.209 0.30595 1 1 1 0.67109 1 0.18485 1 0.57834 1 0.50815 1 0.7803 1 Amp Peak 21(15q26.3) 0 (0%) 412 0.078572 1 0.95488 1 0.50348 1 0.68926 1 2.4238e-09 1.96e-06 0.63985 1 0.97809 1 0.25265 1 0.15745 1 0.94533 1 0.11883 1 0.36343 1 Amp Peak 22(17q25.3) 0 (0%) 362 0.45333 1 0.26106 1 0.91254 1 0.12259 1 0.0057268 1 0.92687 1 0.093596 1 0.11207 1 0.016232 1 0.024064 1 0.4061 1 0.16901 1 Amp Peak 23(18q11.2) 0 (0%) 430 0.95152 1 0.19753 1 0.9758 1 0.52659 1 3.4025e-07 0.00027 0.0012698 0.932 0.20545 1 0.45327 1 0.042716 1 0.10889 1 0.31304 1 0.82502 1 Amp Peak 24(19p13.12) 0 (0%) 263 0.00062354 0.465 0.00046285 0.347 0.046053 1 0.052014 1 1.0223e-13 8.42e-11 4.2007e-06 0.0033 0.00066159 0.492 0.0037834 1 0.21537 1 0.26956 1 0.48203 1 0.59549 1 Amp Peak 25(19q12) 0 (0%) 255 0.073562 1 0.023539 1 0.040171 1 0.1472 1 2.2467e-29 1.86e-26 1.0602e-10 8.58e-08 0.080336 1 0.82035 1 0.5507 1 0.85952 1 0.33501 1 0.59597 1 Amp Peak 26(19q13.2) 0 (0%) 331 0.95676 1 0.042548 1 0.65425 1 0.30736 1 6.201e-12 5.07e-09 5.3662e-05 0.0411 0.45652 1 0.38234 1 0.45755 1 0.98471 1 1 1 0.3794 1 Amp Peak 27(20p13) 0 (0%) 259 0.46542 1 0.0023628 1 0.13274 1 0.030225 1 1.4286e-11 1.16e-08 8.4158e-06 0.00659 0.32141 1 0.97078 1 0.071585 1 0.6862 1 0.24165 1 0.89627 1 Amp Peak 28(20q11.21) 0 (0%) 237 0.0055287 1 3.6807e-08 2.94e-05 0.1845 1 0.00010511 0.0798 2.6142e-24 2.16e-21 6.6144e-13 5.43e-10 0.14036 1 0.039225 1 0.00013753 0.104 0.59878 1 0.5432 1 0.25099 1 Amp Peak 29(20q13.33) 0 (0%) 177 0.0076074 1 3.7542e-05 0.0289 0.59895 1 0.0032562 1 6.6608e-18 5.5e-15 6.0758e-08 4.85e-05 0.89923 1 0.56042 1 0.0080012 1 0.79319 1 0.4765 1 0.60408 1 Amp Peak 30(22q12.2) 0 (0%) 481 0.60209 1 0.73875 1 0.083599 1 0.35916 1 0.0018704 1 0.0012499 0.919 1 1 0.057451 1 0.098624 1 0.195 1 0.10137 1 0.011408 1 Amp Peak 31(Xp11.23) 0 (0%) 406 0.75882 1 0.25697 1 0.29798 1 0.30833 1 7.15e-06 0.00561 2.4181e-05 0.0187 0.70289 1 0.2224 1 0.28613 1 0.2156 1 0.36494 1 0.87915 1 Amp Peak 32(Xq28) 0 (0%) 345 0.24105 1 0.3924 1 0.83206 1 0.11732 1 4.7302e-05 0.0364 0.12993 1 0.35856 1 0.7908 1 0.5486 1 0.4349 1 0.91696 1 0.011929 1 Del Peak 1(1p36.11) 0 (0%) 304 0.95178 1 0.80401 1 0.038525 1 0.32565 1 1.878e-06 0.00148 0.1505 1 0.18884 1 0.41581 1 0.96084 1 0.80721 1 0.22128 1 0.14443 1 Del Peak 2(1q32.3) 0 (0%) 474 0.084751 1 0.51752 1 0.47661 1 0.11027 1 3.0534e-07 0.000242 0.34195 1 0.78069 1 0.10493 1 0.11541 1 0.33037 1 0.897 1 0.56961 1 Del Peak 3(2p25.3) 0 (0%) 451 0.97269 1 0.98153 1 0.45398 1 0.48882 1 0.34526 1 0.52196 1 0.14867 1 0.11212 1 0.050061 1 0.73405 1 0.90478 1 0.50594 1 Del Peak 4(2q22.1) 0 (0%) 435 0.072165 1 0.12952 1 0.86688 1 0.15013 1 0.032741 1 0.19949 1 0.28134 1 0.70968 1 0.98287 1 0.35733 1 0.56696 1 0.57438 1 Del Peak 5(2q37.3) 0 (0%) 395 0.010324 1 0.00080091 0.593 0.61168 1 0.0016975 1 3.6027e-05 0.0278 0.065016 1 0.72491 1 0.89364 1 0.01988 1 0.028864 1 0.01865 1 0.012482 1 Del Peak 6(3p26.2) 0 (0%) 359 0.083027 1 6.134e-05 0.0469 0.0041237 1 0.022196 1 6.4695e-05 0.0494 0.00010227 0.0778 0.96999 1 0.094852 1 0.0031158 1 0.67425 1 0.62801 1 0.61119 1 Del Peak 7(4q22.1) 0 (0%) 186 0.028347 1 0.32774 1 0.92746 1 0.0096555 1 0.075146 1 0.50724 1 0.059333 1 0.0090796 1 0.10929 1 0.42446 1 0.19509 1 0.0073341 1 Del Peak 8(4q34.3) 0 (0%) 157 0.016511 1 0.13503 1 0.022166 1 0.013417 1 0.28284 1 0.51362 1 0.4294 1 0.21123 1 0.08514 1 0.030251 1 0.33715 1 0.17663 1 Del Peak 9(5q11.2) 0 (0%) 228 0.69371 1 0.14363 1 0.42478 1 0.20625 1 4.6927e-08 3.75e-05 0.00020969 0.158 0.73119 1 0.85153 1 0.1817 1 0.12795 1 0.034107 1 0.00055831 0.417 Del Peak 10(5q13.2) 0 (0%) 163 0.70233 1 0.73831 1 0.8876 1 0.80891 1 2.0685e-12 1.7e-09 0.043796 1 0.76159 1 0.82409 1 0.3536 1 0.0030253 1 0.12125 1 0.0088524 1 Del Peak 11(6q27) 0 (0%) 188 0.12649 1 0.0018625 1 0.34563 1 0.016375 1 3.8553e-09 3.11e-06 1.8405e-05 0.0143 0.42773 1 0.91712 1 2.6855e-05 0.0208 0.24953 1 0.4568 1 0.94464 1 Del Peak 12(7p22.1) 0 (0%) 322 0.56881 1 0.022446 1 0.67779 1 0.65962 1 2.7779e-13 2.28e-10 0.82113 1 0.80093 1 0.78182 1 0.28221 1 0.10438 1 0.32752 1 0.56375 1 Del Peak 13(8p23.3) 0 (0%) 188 0.057085 1 0.0084541 1 0.62934 1 0.018522 1 1.1027e-11 9e-09 0.038558 1 0.87324 1 0.61599 1 0.89476 1 0.60024 1 0.23462 1 0.15946 1 Del Peak 14(8p21.2) 0 (0%) 171 0.038822 1 0.014637 1 0.23329 1 0.0095627 1 1.1027e-08 8.84e-06 0.29002 1 0.79353 1 0.84768 1 0.36021 1 0.25 1 0.54086 1 0.48426 1 Del Peak 15(9p24.3) 0 (0%) 314 0.00011684 0.0886 0.080346 1 0.77196 1 0.0091386 1 0.021681 1 0.00024351 0.183 0.45165 1 0.59747 1 0.072551 1 0.074551 1 0.087932 1 0.13694 1 Del Peak 16(9q34.13) 0 (0%) 232 0.019322 1 0.014445 1 1 1 0.018812 1 2.9376e-07 0.000234 0.033137 1 0.34379 1 0.37086 1 0.27207 1 1 1 0.03707 1 0.099525 1 Del Peak 17(10p15.3) 0 (0%) 448 0.13813 1 0.04065 1 0.096768 1 0.086514 1 0.072144 1 0.41364 1 0.28282 1 0.068751 1 0.014455 1 0.060723 1 0.25458 1 0.33814 1 Del Peak 18(10q23.31) 0 (0%) 349 0.23833 1 0.9805 1 0.00055605 0.415 0.012485 1 0.00024672 0.186 0.0011196 0.825 0.036002 1 0.012118 1 0.96084 1 0.50205 1 0.073452 1 0.38278 1 Del Peak 19(10q26.3) 0 (0%) 380 0.0084121 1 0.055327 1 0.2502 1 0.40473 1 1.0801e-05 0.00842 0.093599 1 0.0924 1 0.01349 1 0.060288 1 0.12159 1 0.016338 1 0.22053 1 Del Peak 20(11p15.5) 0 (0%) 231 0.049854 1 0.30594 1 0.72854 1 0.047678 1 6.7563e-12 5.52e-09 0.0098666 1 0.96331 1 0.59561 1 0.71737 1 0.272 1 0.12946 1 0.023987 1 Del Peak 21(11q25) 0 (0%) 374 0.80951 1 0.21082 1 0.17489 1 0.38042 1 0.095652 1 0.46337 1 0.31973 1 0.17519 1 0.93094 1 0.87676 1 0.5974 1 0.13818 1 Del Peak 22(12q24.33) 0 (0%) 352 0.0019529 1 2.6295e-06 0.00207 0.21571 1 0.089147 1 4.8348e-10 3.91e-07 0.042268 1 0.3814 1 0.50179 1 0.069961 1 0.0031356 1 0.017165 1 0.0056917 1 Del Peak 23(13q14.2) 0 (0%) 214 0.025916 1 0.51566 1 0.72294 1 0.68348 1 1.2874e-06 0.00102 9.5248e-06 0.00745 0.0014027 1 0.00080734 0.597 0.09885 1 0.25006 1 0.37539 1 0.89057 1 Del Peak 24(14q23.3) 0 (0%) 271 0.072003 1 0.60725 1 0.8278 1 0.85386 1 0.00014293 0.108 0.38811 1 0.18481 1 0.24683 1 0.85595 1 0.20068 1 0.8034 1 0.66168 1 Del Peak 25(15q15.1) 0 (0%) 212 0.042262 1 0.00046877 0.351 0.011088 1 0.0062633 1 2.2791e-11 1.85e-08 6.142e-05 0.0469 0.12115 1 0.045597 1 0.01805 1 0.76761 1 0.46434 1 0.67584 1 Del Peak 26(16p13.3) 0 (0%) 266 0.54218 1 0.077289 1 0.16686 1 0.46168 1 0.061994 1 0.5919 1 0.92114 1 0.23886 1 0.50761 1 0.78608 1 0.20404 1 0.85155 1 Del Peak 27(16q22.1) 0 (0%) 118 0.3634 1 0.31888 1 0.030269 1 0.92458 1 0.00031587 0.237 0.39245 1 0.55204 1 0.35943 1 0.30349 1 0.30528 1 0.41225 1 0.12574 1 Del Peak 28(16q23.1) 0 (0%) 127 0.10968 1 0.10456 1 0.14294 1 0.32006 1 5.0993e-05 0.0391 0.37258 1 0.6021 1 0.92483 1 0.39459 1 0.44854 1 0.08924 1 0.039284 1 Del Peak 29(17p12) 0 (0%) 88 0.32182 1 0.7194 1 0.61934 1 0.59075 1 0.9356 1 0.39554 1 0.93821 1 0.36217 1 0.1874 1 0.51545 1 0.61003 1 0.62084 1 Del Peak 30(17q11.2) 0 (0%) 103 0.94995 1 0.062677 1 0.73465 1 0.47727 1 0.00062559 0.465 0.00099555 0.735 0.76734 1 0.066573 1 0.37712 1 0.57142 1 0.20232 1 0.56529 1 Del Peak 31(18q23) 0 (0%) 196 0.93433 1 0.84248 1 0.18805 1 0.4338 1 0.0059356 1 0.44674 1 0.22796 1 0.275 1 0.21987 1 0.3983 1 0.68926 1 0.68941 1 Del Peak 32(19p13.3) 0 (0%) 67 0.25694 1 0.0039941 1 0.9433 1 0.46179 1 0.0012376 0.911 0.018642 1 0.59172 1 0.22869 1 0.33265 1 0.015723 1 0.47594 1 0.85014 1 Del Peak 33(19q13.33) 0 (0%) 274 0.00067455 0.501 0.010053 1 0.063421 1 0.13786 1 0.028619 1 0.0023453 1 0.034225 1 0.21418 1 0.0078351 1 0.084428 1 0.25918 1 0.15122 1 Del Peak 34(19q13.43) 0 (0%) 289 0.013761 1 0.051722 1 0.078916 1 0.15686 1 0.00081579 0.603 6.4934e-05 0.0495 0.17832 1 0.27795 1 0.5553 1 0.15411 1 0.52674 1 0.45469 1 Del Peak 35(21q22.3) 0 (0%) 348 0.23458 1 0.35875 1 0.70456 1 0.24109 1 0.78253 1 0.34745 1 0.57876 1 0.62599 1 0.18866 1 0.27222 1 0.73978 1 0.65237 1 Del Peak 36(22q13.32) 0 (0%) 76 0.12472 1 0.062077 1 0.022884 1 0.071725 1 0.0080462 1 0.092995 1 0.071142 1 0.34908 1 0.068042 1 0.17968 1 0.023586 1 0.29558 1 Del Peak 37(Xp21.1) 0 (0%) 205 0.296 1 0.98007 1 0.11993 1 0.64288 1 0.10031 1 0.021778 1 0.32266 1 0.043386 1 0.90769 1 0.40881 1 0.93591 1 0.42976 1