Molecular subtypes MRNA_CNMF MRNA_CHIERARCHICAL CN_CNMF METHLYATION_CNMF 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 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 Amp Peak 1(1q32.1) 23 (10%) 197 NA NA NA NA 7.8123e-07 0.000231 8.1539e-05 0.0225 1.9049e-05 0.00537 0.3778 1 0.63903 1 0.41559 1 Amp Peak 2(4q12) 10 (5%) 210 NA NA NA NA 0.50271 1 0.52305 1 0.39284 1 0.54272 1 0.81189 1 0.39251 1 Amp Peak 3(7p11.2) 55 (25%) 165 0.86379 1 0.85953 1 1.0968e-18 3.49e-16 1.1733e-12 3.64e-10 1.168e-09 3.55e-07 0.017227 1 0.0010801 0.282 0.018151 1 Amp Peak 4(7q32.3) 77 (35%) 143 0.7639 1 0.57547 1 8.3915e-17 2.63e-14 5.4282e-07 0.000161 2.5251e-05 0.0071 0.028635 1 0.055146 1 0.20668 1 Amp Peak 5(8q24.21) 44 (20%) 176 0.36962 1 1 1 6.8684e-06 0.00198 1.7156e-06 0.000504 0.0011407 0.297 0.0018892 0.484 0.020113 1 0.1097 1 Amp Peak 6(10p15.1) 35 (16%) 185 0.46711 1 0.46778 1 2.6143e-09 7.9e-07 9.1637e-08 2.75e-05 0.0033469 0.82 0.0047341 1 0.0006128 0.162 0.86861 1 Amp Peak 7(10q11.21) 5 (2%) 215 NA NA NA NA 0.19976 1 0.44322 1 0.21252 1 0.17637 1 0.0094915 1 0.55622 1 Amp Peak 8(11q23.3) 38 (17%) 182 0.070754 1 0.016215 1 0.92156 1 0.027711 1 0.21675 1 0.23021 1 0.47911 1 0.59072 1 Amp Peak 9(12p13.32) 34 (15%) 186 0.86379 1 0.85953 1 1.0003e-05 0.00285 6.3349e-05 0.0176 0.013411 1 0.00095899 0.251 0.0080171 1 0.0098645 1 Amp Peak 10(12p11.22) 21 (10%) 199 1 1 0.38766 1 0.021217 1 0.047375 1 0.14154 1 0.0032945 0.81 0.0020917 0.527 0.035456 1 Amp Peak 11(12q14.1) 14 (6%) 206 NA NA NA NA 0.12167 1 0.39814 1 0.029008 1 0.32793 1 0.94026 1 0.9095 1 Amp Peak 12(19p13.3) 51 (23%) 169 0.18636 1 0.27227 1 1.6926e-09 5.13e-07 5.8419e-06 0.00169 0.0045873 1 0.0029628 0.732 0.11255 1 0.54613 1 Amp Peak 13(19q13.2) 15 (7%) 205 0.36923 1 0.32684 1 1.0184e-06 3e-04 0.00038156 0.103 0.00026654 0.0728 0.010114 1 0.034123 1 0.0080985 1 Amp Peak 14(Xp22.33) 15 (7%) 205 NA NA NA NA 0.0024776 0.617 0.0072974 1 0.32277 1 0.090494 1 0.12088 1 1 1 Amp Peak 15(Xq11.2) 31 (14%) 189 0.28205 1 0.80256 1 3.6297e-06 0.00105 1.9733e-06 0.000578 0.011838 1 0.00039659 0.107 0.12375 1 0.37334 1 Del Peak 1(1p36.31) 83 (38%) 137 0.0005487 0.146 0.0020067 0.508 3.6942e-31 1.19e-28 3.0162e-37 9.77e-35 4.4437e-17 1.4e-14 7.501e-20 2.39e-17 4.5568e-11 1.4e-08 0.0093888 1 Del Peak 2(1p32.3) 77 (35%) 143 0.028572 1 0.063545 1 2.8777e-37 9.35e-35 1.247e-40 4.07e-38 2.6978e-18 8.55e-16 2.0897e-23 6.71e-21 3.5108e-13 1.09e-10 0.0008998 0.237 Del Peak 3(1q43) 13 (6%) 207 NA NA NA NA 0.66566 1 0.33 1 0.20205 1 0.086077 1 0.34309 1 0.29568 1 Del Peak 4(2q37.3) 32 (15%) 188 0.18013 1 0.54738 1 0.0013379 0.347 9.1855e-06 0.00263 0.021793 1 0.021692 1 0.063002 1 0.20445 1 Del Peak 5(3p21.1) 20 (9%) 200 1 1 0.41333 1 0.35851 1 0.028755 1 0.94019 1 0.014346 1 0.056591 1 0.0081216 1 Del Peak 6(3q29) 21 (10%) 199 0.17504 1 1 1 0.0098173 1 0.0021801 0.547 0.11373 1 0.073959 1 0.54002 1 0.13553 1 Del Peak 7(4q33) 61 (28%) 159 1 1 0.7842 1 0.00050218 0.134 0.00036505 0.0989 0.031872 1 0.018551 1 0.0019364 0.492 0.36196 1 Del Peak 8(4q35.2) 62 (28%) 158 1 1 0.7842 1 8.1803e-05 0.0225 6.4625e-05 0.0179 0.019041 1 0.016553 1 0.0050465 1 0.26156 1 Del Peak 9(5q35.2) 28 (13%) 192 0.44623 1 0.60981 1 0.0026055 0.646 0.00044704 0.12 0.030098 1 0.0054043 1 0.026901 1 0.079759 1 Del Peak 10(6p24.1) 21 (10%) 199 NA NA NA NA 0.13113 1 0.37095 1 0.43558 1 0.23266 1 0.25182 1 0.44953 1 Del Peak 11(6q24.3) 33 (15%) 187 0.047863 1 0.040684 1 0.015832 1 0.0014973 0.386 0.26901 1 0.051936 1 0.018933 1 0.44883 1 Del Peak 12(8p23.2) 11 (5%) 209 1 1 0.38766 1 0.0069582 1 0.012691 1 0.13584 1 0.35957 1 0.63402 1 0.23003 1 Del Peak 13(9p21.3) 78 (35%) 142 0.33256 1 0.27227 1 2.3989e-07 7.15e-05 8.3487e-06 0.0024 0.0067945 1 0.046519 1 0.25619 1 0.15021 1 Del Peak 14(10q26.2) 70 (32%) 150 0.17949 1 0.25686 1 1.0528e-17 3.33e-15 1.5271e-16 4.78e-14 1.0863e-13 3.39e-11 2.7961e-08 8.42e-06 3.4419e-06 0.001 0.00072409 0.191 Del Peak 15(11p15.5) 48 (22%) 172 0.64244 1 0.18398 1 1.9774e-07 5.91e-05 1.0325e-09 3.15e-07 0.024797 1 0.00028252 0.0768 0.2063 1 0.42845 1 Del Peak 16(11q25) 15 (7%) 205 NA NA NA NA 0.0018332 0.471 0.016455 1 0.1258 1 0.090494 1 0.63314 1 0.11845 1 Del Peak 17(12q24.11) 30 (14%) 190 1 1 0.38766 1 4.9666e-05 0.0139 1.4822e-05 0.00421 0.31167 1 0.008963 1 0.015403 1 0.76604 1 Del Peak 18(13q14.2) 65 (30%) 155 0.1801 1 0.073304 1 0.053996 1 0.0090219 1 0.48244 1 0.20239 1 0.214 1 0.54764 1 Del Peak 19(13q34) 50 (23%) 170 0.50769 1 0.52615 1 0.24429 1 0.092912 1 0.24232 1 0.15597 1 0.10601 1 0.31639 1 Del Peak 20(14q24.3) 51 (23%) 169 0.30286 1 0.34058 1 0.002355 0.589 0.015135 1 0.025302 1 0.11845 1 0.008786 1 0.014104 1 Del Peak 21(15q21.3) 27 (12%) 193 0.83946 1 0.82832 1 0.059641 1 0.059199 1 0.0069902 1 0.24653 1 0.33959 1 0.84121 1 Del Peak 22(17q25.3) 15 (7%) 205 NA NA NA NA 0.020586 1 0.16385 1 0.65823 1 0.36726 1 0.35388 1 0.75541 1 Del Peak 23(18p11.32) 32 (15%) 188 0.32144 1 0.38766 1 0.552 1 0.13672 1 0.48063 1 0.64846 1 0.67989 1 0.38044 1 Del Peak 24(18q23) 35 (16%) 185 0.32144 1 0.38766 1 0.91795 1 0.10792 1 0.48928 1 0.87526 1 0.75573 1 0.54023 1 Del Peak 25(19q13.42) 116 (53%) 104 0.03533 1 0.010523 1 4.3984e-29 1.42e-26 1.115e-22 3.57e-20 4.8095e-11 1.48e-08 3.347e-12 1.03e-09 6.6679e-10 2.04e-07 0.11218 1 Del Peak 26(22q13.31) 31 (14%) 189 0.25043 1 0.14359 1 2.211e-06 0.000646 1.7533e-05 0.00496 4.5024e-05 0.0126 0.0018946 0.484 0.0096134 1 0.11851 1 Del Peak 27(Xp22.31) 51 (23%) 169 0.73001 1 0.60981 1 0.51694 1 0.20117 1 0.54772 1 0.092602 1 0.078922 1 0.086525 1 Del Peak 28(Xq21.1) 30 (14%) 190 0.73001 1 0.50446 1 0.46798 1 0.058506 1 0.008376 1 0.025848 1 0.00019291 0.0529 0.36328 1