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 5 (3%) 167 0.00043583 0.198 0.0026677 1 0.02935 1 0.046683 1 0.23627 1 0.041158 1 0.23274 1 0.26394 1 1q gain 14 (8%) 158 3.5901e-06 0.00181 1.1371e-06 0.000578 6.2751e-05 0.0301 0.0013197 0.575 0.23527 1 5.1174e-05 0.0247 0.38346 1 0.026246 1 2p gain 32 (19%) 140 7.4383e-08 3.95e-05 0.012321 1 0.18122 1 0.75517 1 0.11396 1 0.70579 1 0.045147 1 0.8011 1 2q gain 35 (20%) 137 2.6693e-09 1.44e-06 0.026165 1 0.52918 1 0.65325 1 0.14502 1 1 1 0.039811 1 0.94102 1 3p gain 46 (27%) 126 5.7952e-19 3.19e-16 0.024359 1 6.6845e-05 0.032 0.082005 1 0.15966 1 0.0033977 1 0.31797 1 0.015178 1 3q gain 55 (32%) 117 1.6443e-17 8.99e-15 0.03425 1 2.2918e-05 0.0113 0.087565 1 0.13199 1 0.021975 1 0.43452 1 0.020817 1 4p gain 6 (3%) 166 0.88512 1 0.16224 1 0.93704 1 0.87009 1 1 1 0.19647 1 0.59307 1 0.039981 1 4q gain 5 (3%) 167 1 1 0.16224 1 1 1 0.51993 1 0.73898 1 0.63926 1 0.44957 1 0.19249 1 5p gain 26 (15%) 146 0.00088953 0.392 0.0014383 0.624 0.10619 1 0.00061658 0.277 0.068523 1 0.097156 1 0.23495 1 0.3048 1 5q gain 26 (15%) 146 0.0022612 0.963 0.0081053 1 0.10703 1 0.00061658 0.277 0.068523 1 0.29666 1 0.23495 1 0.36809 1 6p gain 8 (5%) 164 0.16653 1 0.045916 1 0.036435 1 0.24449 1 0.029795 1 0.10412 1 0.0094105 1 0.29102 1 6q gain 6 (3%) 166 0.044223 1 0.041316 1 0.17225 1 0.37342 1 0.16518 1 0.24679 1 0.064951 1 0.42564 1 7p gain 100 (58%) 72 5.4728e-19 3.02e-16 7.5533e-08 4e-05 3.5472e-13 1.93e-10 1.3796e-07 7.23e-05 0.099048 1 0.00023924 0.11 0.16735 1 0.010417 1 7q gain 101 (59%) 71 1.8689e-18 1.03e-15 2.1166e-07 0.00011 4.8755e-13 2.65e-10 2.0141e-07 0.000105 0.14055 1 0.001264 0.554 0.22155 1 0.040792 1 8p gain 12 (7%) 160 0.141 1 0.0028905 1 0.13396 1 0.85932 1 0.10774 1 0.054361 1 0.31226 1 0.032066 1 8q gain 15 (9%) 157 0.039986 1 2.4524e-05 0.012 0.0047239 1 0.21384 1 0.0074334 1 0.013503 1 0.068318 1 0.00495 1 9p gain 3 (2%) 169 0.69657 1 NA NA 0.26069 1 0.095138 1 0.77502 1 0.087594 1 0.77677 1 0.059438 1 10p gain 5 (3%) 167 0.049388 1 0.03977 1 0.65053 1 1 1 0.16309 1 0.41046 1 0.13031 1 0.353 1 10q gain 5 (3%) 167 0.049388 1 0.03977 1 0.65053 1 1 1 0.16309 1 0.41046 1 0.13031 1 0.353 1 11p gain 8 (5%) 164 0.015309 1 0.0015128 0.654 0.65733 1 0.012371 1 0.077484 1 0.35834 1 1 1 0.24868 1 11q gain 7 (4%) 165 0.0099577 1 0.00067135 0.3 0.5129 1 0.034692 1 0.17747 1 0.8687 1 1 1 0.58759 1 12p gain 68 (40%) 104 0.00023579 0.109 0.46109 1 0.015568 1 0.13096 1 0.2884 1 0.068955 1 0.059707 1 0.20867 1 12q gain 68 (40%) 104 0.00023579 0.109 0.46109 1 0.015568 1 0.13096 1 0.2884 1 0.068955 1 0.059707 1 0.20867 1 13q gain 19 (11%) 153 0.046748 1 1 1 0.31794 1 0.72242 1 1 1 1 1 0.92267 1 1 1 14q gain 3 (2%) 169 0.25757 1 0.03977 1 0.55661 1 0.095138 1 1 1 0.087594 1 1 1 0.059438 1 15q gain 5 (3%) 167 0.01735 1 0.041316 1 0.29896 1 0.07313 1 0.52681 1 0.63926 1 0.73582 1 0.353 1 16p gain 89 (52%) 83 3.337e-10 1.8e-07 0.24159 1 0.00052764 0.239 0.00060018 0.27 0.038363 1 0.023219 1 0.0030467 1 0.016973 1 16q gain 85 (49%) 87 2.8832e-11 1.56e-08 0.089588 1 5.2763e-05 0.0254 0.0025735 1 0.0089705 1 0.001496 0.648 0.0017551 0.753 0.0031346 1 17p gain 102 (59%) 70 1.4094e-17 7.72e-15 1.1346e-07 5.98e-05 1.3527e-10 7.3e-08 3.8419e-09 2.06e-06 0.02277 1 0.00025935 0.119 0.14417 1 0.0079088 1 17q gain 117 (68%) 55 5.2039e-12 2.83e-09 0.0011727 0.515 9.37e-07 0.000478 1.0893e-05 0.00542 0.29264 1 0.07427 1 0.49015 1 0.12194 1 18p gain 9 (5%) 163 0.17039 1 0.42304 1 0.71394 1 0.91101 1 0.13758 1 0.043234 1 0.35845 1 0.21028 1 18q gain 5 (3%) 167 0.15101 1 0.2531 1 0.52747 1 1 1 0.62348 1 0.23905 1 0.62747 1 1 1 19p gain 3 (2%) 169 0.25757 1 0.4568 1 0.55661 1 0.41216 1 0.52541 1 0.014565 1 0.5097 1 0.29464 1 19q gain 3 (2%) 169 0.25757 1 0.4568 1 0.55661 1 0.41216 1 0.52541 1 0.014565 1 0.5097 1 0.29464 1 20p gain 58 (34%) 114 0.0012694 0.555 0.10814 1 0.077732 1 0.323 1 0.3013 1 0.64639 1 0.87898 1 0.7584 1 20q gain 60 (35%) 112 0.0055071 1 0.10866 1 0.14196 1 0.45228 1 0.27577 1 0.72928 1 0.79958 1 0.74692 1 21q gain 12 (7%) 160 1 1 0.41259 1 0.052306 1 0.10154 1 0.39301 1 0.51552 1 0.22742 1 0.33742 1 xq gain 54 (31%) 118 1.511e-14 8.25e-12 0.0063954 1 6.9645e-06 0.00349 7.7525e-05 0.037 0.0080466 1 0.0076693 1 0.013161 1 0.13595 1 1p loss 21 (12%) 151 0.00012148 0.0569 0.054714 1 0.0022672 0.964 0.0035605 1 1 1 0.68987 1 0.95344 1 0.89697 1 1q loss 13 (8%) 159 0.046713 1 0.47147 1 0.63193 1 0.0045483 1 0.87746 1 0.21005 1 0.51615 1 0.36584 1 3p loss 14 (8%) 158 1.6119e-05 0.00798 4.4728e-07 0.00023 0.00031393 0.143 0.0010792 0.475 0.011366 1 0.0033353 1 0.41493 1 0.0001041 0.049 3q loss 4 (2%) 168 0.0024794 1 0.010397 1 0.1167 1 0.022838 1 0.32787 1 0.5849 1 0.38759 1 0.056445 1 4p loss 18 (10%) 154 2.6912e-07 0.00014 1.0248e-07 5.42e-05 3.5686e-07 0.000184 7.8003e-06 0.0039 0.43594 1 0.06532 1 0.665 1 0.025528 1 4q loss 19 (11%) 153 7.2279e-08 3.86e-05 2.5735e-08 1.38e-05 1.2653e-07 6.64e-05 2.7612e-05 0.0135 0.59944 1 0.12364 1 0.58154 1 0.042574 1 5p loss 7 (4%) 165 0.32185 1 0.0015128 0.654 0.014859 1 3.3447e-05 0.0163 0.01854 1 0.088473 1 0.030876 1 0.06495 1 5q loss 7 (4%) 165 0.32185 1 0.0015128 0.654 0.014859 1 3.3447e-05 0.0163 0.01854 1 0.088473 1 0.030876 1 0.06495 1 6p loss 12 (7%) 160 0.006604 1 0.041867 1 0.045288 1 0.014218 1 0.49025 1 0.39862 1 0.86892 1 0.33742 1 6q loss 15 (9%) 157 9.9164e-05 0.0468 0.00087105 0.386 0.010683 1 0.032552 1 0.56714 1 0.54823 1 0.70299 1 0.2597 1 8p loss 6 (3%) 166 0.044223 1 1 1 0.60767 1 0.41925 1 0.37352 1 0.19647 1 0.37951 1 0.11752 1 8q loss 4 (2%) 168 0.093147 1 1 1 0.42097 1 0.095138 1 1 1 0.43761 1 1 1 0.38099 1 9p loss 22 (13%) 150 1.6916e-06 0.000858 3.9882e-07 0.000206 9.8924e-07 0.000504 0.00018687 0.0863 0.022189 1 0.0094516 1 0.064132 1 0.012143 1 9q loss 24 (14%) 148 3.0303e-06 0.00153 1.5255e-07 7.98e-05 1.1508e-07 6.05e-05 5.4112e-07 0.000278 0.0055062 1 6.0347e-05 0.029 0.034683 1 9.5827e-05 0.0453 10p loss 12 (7%) 160 7.3149e-08 3.9e-05 7.4924e-05 0.0358 0.00074582 0.333 0.16424 1 0.2893 1 0.00011404 0.0535 0.33744 1 0.00055771 0.252 10q loss 12 (7%) 160 3.0452e-06 0.00153 1.9127e-05 0.00943 0.00074582 0.333 0.02755 1 0.060693 1 1.4247e-05 0.00707 0.086918 1 0.00013871 0.0648 11p loss 10 (6%) 162 0.00083622 0.371 0.0038864 1 0.014573 1 0.027827 1 0.084578 1 0.17239 1 0.42833 1 0.013461 1 11q loss 14 (8%) 158 1.6119e-05 0.00798 0.0001481 0.069 0.022392 1 0.018254 1 0.070608 1 0.070965 1 0.41493 1 0.026246 1 13q loss 17 (10%) 155 1.2118e-05 0.00602 1.4248e-08 7.64e-06 7.8355e-06 0.00391 7.8153e-05 0.0372 0.010745 1 0.0020978 0.896 0.05996 1 0.0062666 1 14q loss 34 (20%) 138 1.1243e-11 6.09e-09 0.0043848 1 0.00026688 0.122 8.2055e-07 0.000419 0.075498 1 0.0043554 1 0.26809 1 0.14952 1 15q loss 19 (11%) 153 9.3318e-05 0.0442 0.00407 1 0.011919 1 1.1063e-07 5.84e-05 0.14037 1 0.42256 1 0.14439 1 0.16016 1 16p loss 4 (2%) 168 0.093147 1 0.010397 1 0.1167 1 0.022838 1 1 1 0.5849 1 1 1 0.056445 1 16q loss 5 (3%) 167 0.01735 1 0.0026677 1 0.02935 1 0.046683 1 0.62348 1 0.31796 1 0.62747 1 0.0083482 1 17p loss 8 (5%) 164 0.015309 1 0.0001656 0.077 0.0017774 0.761 0.0033621 1 0.28423 1 0.072959 1 0.31234 1 0.039622 1 18p loss 28 (16%) 144 0.00033659 0.153 3.9153e-06 0.00197 2.0301e-06 0.00103 0.00059806 0.27 0.047229 1 0.11274 1 0.32389 1 0.34767 1 18q loss 30 (17%) 142 3.3034e-05 0.0161 2.9694e-07 0.000154 2.5968e-07 0.000135 0.00017682 0.0819 0.065354 1 0.13285 1 0.33018 1 0.23977 1 19p loss 12 (7%) 160 0.00087422 0.386 0.01071 1 0.11104 1 0.032947 1 0.0284 1 0.052137 1 0.56588 1 0.018223 1 19q loss 11 (6%) 161 8.492e-05 0.0403 0.041867 1 0.091982 1 0.14733 1 0.039096 1 0.11655 1 0.28585 1 0.051035 1 21q loss 30 (17%) 142 0.00017278 0.0802 0.18757 1 0.66825 1 0.071988 1 0.68632 1 0.19087 1 0.28363 1 0.75828 1 22q loss 41 (24%) 131 6.8755e-07 0.000352 4.7309e-07 0.000243 7.3693e-08 3.92e-05 0.0013464 0.586 0.1355 1 0.00010989 0.0516 0.046448 1 0.076441 1 xq loss 20 (12%) 152 2.2632e-05 0.0111 4.3517e-05 0.0211 3.0779e-05 0.015 0.033708 1 0.19751 1 0.054639 1 0.2649 1 0.012072 1