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 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 24 (43%) 32 0.20237 0.773 0.75418 0.998 0.76738 0.998 0.69481 0.998 0.81997 1 0.90016 1 0.52697 0.965 0.28061 0.808 0.60762 0.974 0.56737 0.971 1q gain 31 (55%) 25 0.43921 0.928 0.76812 0.998 0.77384 0.998 0.58924 0.971 0.76102 0.998 0.61815 0.976 0.70623 0.998 0.45586 0.94 0.88359 1 0.81294 1 2p gain 23 (41%) 33 0.88839 1 0.0073499 0.405 1 1 0.03453 0.618 0.01949 0.513 0.055469 0.637 0.49432 0.958 0.072419 0.68 0.10233 0.729 0.13539 0.74 2q gain 21 (38%) 35 0.37028 0.875 0.01911 0.513 0.55064 0.971 0.31641 0.825 0.01221 0.472 0.1129 0.729 0.62205 0.976 0.04929 0.618 0.1952 0.773 0.11146 0.729 3p gain 12 (21%) 44 0.21122 0.773 0.2612 0.805 0.0864 0.705 0.20972 0.773 0.43278 0.926 0.19963 0.773 0.86131 1 0.26392 0.808 0.45205 0.94 0.55219 0.971 3q gain 23 (41%) 33 0.10056 0.729 0.04794 0.618 0.14938 0.753 0.56481 0.971 0.1969 0.773 0.11997 0.729 0.49137 0.958 0.18944 0.773 0.074579 0.68 0.21918 0.773 4p gain 9 (16%) 47 0.73201 0.998 0.70046 0.998 0.21677 0.773 0.02712 0.573 0.82337 1 0.86692 1 0.77588 0.998 0.32643 0.843 0.2612 0.805 0.36902 0.875 4q gain 3 (5%) 53 1 1 0.25729 0.805 1 1 NA NA 0.51394 0.965 0.7935 1 0.67267 0.998 0.56452 0.971 0.59982 0.971 0.6946 0.998 5p gain 23 (41%) 33 0.04581 0.618 0.37666 0.875 0.015683 0.513 0.19836 0.773 0.4539 0.94 0.24457 0.788 0.74193 0.998 0.0277 0.573 0.60173 0.971 0.14772 0.753 5q gain 8 (14%) 48 0.50781 0.965 0.56463 0.971 0.15759 0.759 0.20757 0.773 0.3093 0.817 0.24877 0.792 0.080179 0.68 0.15267 0.753 0.12954 0.736 0.1929 0.773 6p gain 30 (54%) 26 0.19607 0.773 0.52367 0.965 0.77036 0.998 0.52526 0.965 0.60115 0.971 0.41309 0.922 1 1 0.47577 0.944 0.73458 0.998 0.3227 0.837 6q gain 27 (48%) 29 0.20925 0.773 0.20769 0.773 1 1 0.619 0.976 0.22304 0.773 0.16499 0.773 1 1 0.18895 0.773 0.65024 0.994 0.1377 0.74 7p gain 21 (38%) 35 0.19761 0.773 0.55428 0.971 0.22227 0.773 0.29451 0.808 0.15225 0.753 0.28166 0.808 0.58845 0.971 0.12942 0.736 0.32974 0.843 0.12066 0.729 7q gain 17 (30%) 39 0.58696 0.971 0.84098 1 0.52028 0.965 0.87092 1 0.34225 0.861 0.80906 1 0.74515 0.998 0.16561 0.773 1 1 0.15433 0.753 8p gain 19 (34%) 37 0.18781 0.773 0.74441 0.998 0.75831 0.998 0.28012 0.808 0.44388 0.935 0.87342 1 0.97038 1 0.55795 0.971 0.66154 0.998 0.59583 0.971 8q gain 30 (54%) 26 0.01458 0.501 0.19838 0.773 0.77248 0.998 0.59314 0.971 0.04874 0.618 0.50524 0.964 0.21761 0.773 0.32867 0.843 0.065699 0.668 0.12232 0.729 9p gain 6 (11%) 50 0.34906 0.863 0.70286 0.998 0.31124 0.817 0.12214 0.729 0.93576 1 0.66409 0.998 0.83193 1 0.80307 1 0.86193 1 1 1 10p gain 21 (38%) 35 0.33119 0.844 0.02052 0.513 0.04341 0.618 0.29946 0.808 0.04026 0.618 0.1203 0.729 0.32322 0.837 0.1053 0.729 0.67556 0.998 0.20034 0.773 10q gain 17 (30%) 39 0.8722 1 0.33743 0.854 0.12187 0.729 0.46437 0.944 0.55546 0.971 0.04629 0.618 0.22281 0.773 0.18451 0.773 0.38267 0.875 0.071889 0.68 11p gain 5 (9%) 51 0.72179 0.998 0.44538 0.936 0.64405 0.993 0.92406 1 0.2679 0.808 0.85136 1 0.49032 0.958 0.11648 0.729 0.51838 0.965 0.092299 0.708 11q gain 7 (12%) 49 0.68434 0.998 0.38735 0.879 0.68384 0.998 0.71689 0.998 0.22596 0.773 0.3822 0.875 0.75275 0.998 0.03479 0.618 0.57964 0.971 0.02939 0.576 12p gain 22 (39%) 34 0.26172 0.805 0.00415 0.376 0.37416 0.875 0.59503 0.971 0.37402 0.875 0.04181 0.618 0.8101 1 0.97717 1 0.53243 0.965 0.62723 0.976 12q gain 11 (20%) 45 0.53994 0.971 0.5328 0.965 0.47539 0.944 0.85584 1 0.80324 1 0.52279 0.965 1 1 0.29735 0.808 0.91188 1 0.26823 0.808 13q gain 15 (27%) 41 0.64882 0.993 0.070399 0.68 0.099861 0.729 0.54234 0.971 0.02218 0.515 0.02451 0.553 0.22507 0.773 0.04654 0.618 0.01001 0.434 0.14168 0.746 14q gain 7 (12%) 49 0.6089 0.974 0.57698 0.971 0.11737 0.729 0.04891 0.618 0.25658 0.805 0.26059 0.805 0.20689 0.773 0.73292 0.998 0.22567 0.773 0.47673 0.944 15q gain 4 (7%) 52 0.18803 0.773 0.25726 0.805 0.31124 0.817 0.58143 0.971 0.57628 0.971 0.32853 0.843 0.75609 0.998 0.34952 0.863 0.4219 0.923 0.35549 0.864 16p gain 10 (18%) 46 0.10848 0.729 0.27901 0.808 1 1 0.82745 1 0.19489 0.773 0.2772 0.808 1 1 0.4835 0.948 0.90337 1 0.40744 0.912 16q gain 6 (11%) 50 0.17047 0.773 0.84684 1 1 1 0.92405 1 0.54392 0.971 0.96915 1 0.77112 0.998 0.92501 1 0.47921 0.944 0.86798 1 17p gain 9 (16%) 47 0.38564 0.878 0.89601 1 0.43724 0.926 0.8268 1 0.56726 0.971 0.55881 0.971 0.2832 0.808 0.060589 0.668 0.12775 0.736 0.17328 0.773 17q gain 18 (32%) 38 0.42184 0.923 0.27046 0.808 0.75831 0.998 0.80063 1 0.69848 0.998 0.51422 0.965 0.39182 0.887 0.30273 0.808 0.76014 0.998 0.43021 0.926 18p gain 18 (32%) 38 0.67959 0.998 0.04906 0.618 0.35463 0.864 0.78533 1 0.093319 0.709 0.34461 0.862 0.14543 0.753 0.20226 0.773 0.40656 0.912 0.43275 0.926 18q gain 14 (25%) 42 0.68526 0.998 0.080839 0.68 0.47539 0.944 0.59212 0.971 0.15319 0.753 0.24181 0.788 0.20306 0.773 0.087979 0.705 0.14021 0.743 0.16901 0.773 19p gain 24 (43%) 32 0.11581 0.729 0.18089 0.773 1 1 0.72615 0.998 0.27135 0.808 0.36946 0.875 0.53524 0.968 0.22807 0.774 0.41624 0.923 0.51754 0.965 19q gain 28 (50%) 28 0.12371 0.729 0.076629 0.68 1 1 0.87407 1 0.37638 0.875 0.39616 0.894 0.92968 1 0.89857 1 0.88428 1 0.93705 1 20p gain 37 (66%) 19 0.28745 0.808 0.50267 0.964 1 1 0.59711 0.971 0.9225 1 0.76044 0.998 0.87384 1 0.69765 0.998 0.22131 0.773 0.4673 0.944 20q gain 44 (79%) 12 0.051549 0.636 0.91919 1 1 1 0.95264 1 0.96887 1 0.99697 1 0.59025 0.971 0.57411 0.971 0.215 0.773 0.67984 0.998 21q gain 18 (32%) 38 0.071939 0.68 0.37928 0.875 0.75831 0.998 0.78676 1 0.90158 1 0.89194 1 0.91517 1 0.57224 0.971 1 1 0.94759 1 22q gain 8 (14%) 48 0.71141 0.998 0.95965 1 0.31124 0.817 0.3022 0.808 0.80421 1 0.92575 1 0.88704 1 0.94429 1 1 1 1 1 xp gain 18 (32%) 38 0.93792 1 0.01008 0.434 0.53272 0.965 0.47927 0.944 0.01927 0.513 0.24548 0.788 0.7981 1 0.55987 0.971 0.20189 0.773 0.43301 0.926 xq gain 15 (27%) 41 0.69508 0.998 0.36236 0.867 0.34187 0.861 0.76432 0.998 0.76389 0.998 0.71624 0.998 0.86926 1 0.29198 0.808 1 1 0.089829 0.705 1p loss 9 (16%) 47 0.594 0.971 0.6031 0.971 0.43724 0.926 0.62774 0.976 0.92081 1 0.11917 0.729 0.11021 0.729 0.02987 0.576 0.055529 0.637 0.04679 0.618 1q loss 9 (16%) 47 0.48272 0.948 0.51768 0.965 0.43724 0.926 0.29971 0.808 0.5149 0.965 0.078739 0.68 0.42198 0.923 0.15337 0.753 0.21012 0.773 0.14395 0.753 3p loss 20 (36%) 36 0.01045 0.434 0.42318 0.923 1 1 0.71239 0.998 0.04856 0.618 0.22815 0.774 0.37618 0.875 0.92868 1 0.4213 0.923 0.43026 0.926 3q loss 14 (25%) 42 0.13862 0.74 0.4614 0.944 0.74382 0.998 0.79529 1 0.13699 0.74 0.60392 0.971 0.52575 0.965 0.87942 1 0.38194 0.875 1 1 4p loss 31 (55%) 25 0.064839 0.668 0.063959 0.668 1 1 0.080929 0.68 0.25671 0.805 0.2026 0.773 0.03719 0.618 0.71451 0.998 0.14819 0.753 0.4482 0.938 4q loss 33 (59%) 23 0.19042 0.773 0.01847 0.513 0.23155 0.778 0.090129 0.705 0.00461 0.376 0.03938 0.618 0.00018 0.142 0.24793 0.792 0.02035 0.513 0.13569 0.74 5p loss 9 (16%) 47 0.9028 1 0.4768 0.944 0.0056153 0.376 0.060889 0.668 0.88541 1 0.13599 0.74 1 1 0.29759 0.808 1 1 0.41812 0.923 5q loss 18 (32%) 38 0.77071 0.998 0.30669 0.816 0.54682 0.971 0.078459 0.68 0.26697 0.808 0.23379 0.783 0.36199 0.867 0.94598 1 0.35636 0.864 0.947 1 6p loss 5 (9%) 51 0.42422 0.923 0.95515 1 0.57909 0.971 0.74913 0.998 0.75453 0.998 0.95664 1 0.54318 0.971 0.90923 1 1 1 1 1 6q loss 7 (12%) 49 0.063999 0.668 0.69958 0.998 0.64405 0.993 0.16653 0.773 0.63907 0.99 0.90015 1 0.70593 0.998 0.6187 0.976 0.67256 0.998 0.61449 0.976 7p loss 13 (23%) 43 1 1 0.66611 0.998 1 1 0.28662 0.808 0.7348 0.998 0.49984 0.961 0.31408 0.822 0.45487 0.94 0.77504 0.998 0.59783 0.971 7q loss 13 (23%) 43 0.12062 0.729 0.85412 1 0.73389 0.998 0.49548 0.958 0.9195 1 0.82209 1 0.71391 0.998 0.22085 0.773 1 1 0.52867 0.965 8p loss 23 (41%) 33 0.28494 0.808 0.98107 1 0.77454 0.998 0.27245 0.808 0.82607 1 0.74518 0.998 0.68907 0.998 0.51432 0.965 0.60463 0.971 0.57928 0.971 8q loss 9 (16%) 47 1 1 0.75707 0.998 0.43642 0.926 0.68906 0.998 0.29437 0.808 0.71457 0.998 0.94984 1 0.75719 0.998 0.26173 0.805 0.67051 0.998 9p loss 34 (61%) 22 0.29764 0.808 0.0078199 0.405 1 1 0.00048 0.19 0.6752 0.998 0.13592 0.74 0.86169 1 0.28886 0.808 1 1 0.059289 0.668 9q loss 39 (70%) 17 0.18938 0.773 0.00147 0.29 1 1 0.02127 0.513 0.49623 0.958 0.03811 0.618 0.66363 0.998 0.11736 0.729 1 1 0.16096 0.771 10p loss 23 (41%) 33 0.62448 0.976 0.01344 0.483 0.24513 0.788 0.72115 0.998 0.02827 0.573 0.18516 0.773 0.24314 0.788 0.78962 1 0.88041 1 0.89392 1 10q loss 21 (38%) 35 0.88585 1 0.30034 0.808 0.13763 0.74 0.78066 1 0.17576 0.773 0.17097 0.773 0.12338 0.729 0.47259 0.944 0.39767 0.895 0.73708 0.998 11p loss 26 (46%) 30 1 1 0.00402 0.376 0.77384 0.998 0.85547 1 0.37813 0.875 0.51615 0.965 0.26912 0.808 0.57988 0.971 0.51018 0.965 0.36159 0.867 11q loss 24 (43%) 32 0.62595 0.976 0.0081999 0.405 0.77454 0.998 0.80555 1 0.80353 1 0.8945 1 0.29393 0.808 0.58819 0.971 0.22511 0.773 0.18471 0.773 12p loss 13 (23%) 43 0.30224 0.808 0.27495 0.808 0.18074 0.773 0.74114 0.998 0.57862 0.971 0.7343 0.998 0.55002 0.971 0.57988 0.971 1 1 0.21959 0.773 12q loss 14 (25%) 42 0.42787 0.926 0.8812 1 0.50498 0.964 0.12542 0.734 0.8201 1 0.91516 1 0.96427 1 0.90718 1 0.92096 1 0.60283 0.971 13q loss 26 (46%) 30 0.41611 0.923 0.00114 0.29 0.23885 0.786 0.14847 0.753 0.055669 0.637 0.0279 0.573 0.35394 0.864 0.12073 0.729 0.03932 0.618 0.1955 0.773 14q loss 27 (48%) 29 0.94338 1 0.090559 0.705 0.56121 0.971 0.11762 0.729 0.12171 0.729 0.12284 0.729 0.61681 0.976 0.89796 1 0.93892 1 0.93624 1 15q loss 32 (57%) 24 0.0061899 0.376 0.71253 0.998 0.77248 0.998 0.053409 0.637 0.92868 1 0.98056 1 0.93022 1 0.97833 1 1 1 0.89483 1 16p loss 32 (57%) 24 0.2439 0.788 0.49411 0.958 1 1 0.088079 0.705 0.34682 0.862 0.099849 0.729 0.81147 1 0.9131 1 0.47098 0.944 0.89657 1 16q loss 37 (66%) 19 0.77721 0.998 0.79373 1 1 1 0.12895 0.736 0.45248 0.94 0.091039 0.705 0.68592 0.998 0.92304 1 0.13867 0.74 0.85701 1 17p loss 34 (61%) 22 0.54797 0.971 0.28518 0.808 0.04341 0.618 0.27301 0.808 0.97999 1 0.75848 0.998 0.80511 1 0.89141 1 0.23771 0.786 0.88735 1 17q loss 17 (30%) 39 0.16232 0.772 0.35787 0.865 0.52798 0.965 0.62741 0.976 0.71479 0.998 0.38331 0.875 0.96864 1 0.21162 0.773 0.93028 1 0.27752 0.808 18p loss 18 (32%) 38 0.03177 0.598 0.01658 0.513 0.35508 0.864 0.28606 0.808 0.054689 0.637 0.090329 0.705 0.066869 0.669 0.079199 0.68 0.061729 0.668 0.04711 0.618 18q loss 20 (36%) 36 0.11639 0.729 0.071319 0.68 0.36575 0.873 0.29534 0.808 0.18488 0.773 0.11933 0.729 0.01256 0.472 0.0057099 0.376 0.0059999 0.376 0.00231 0.365 19p loss 15 (27%) 41 0.56308 0.971 0.46525 0.944 0.30004 0.808 0.47129 0.944 0.20321 0.773 0.35666 0.864 0.34582 0.862 0.71577 0.998 0.21181 0.773 0.70439 0.998 19q loss 13 (23%) 43 0.73263 0.998 0.15217 0.753 0.47539 0.944 0.81844 1 0.9444 1 0.61625 0.976 0.22978 0.776 0.87467 1 0.23502 0.783 1 1 20p loss 7 (12%) 49 0.5371 0.969 0.20754 0.773 1 1 0.00315 0.376 0.080849 0.68 0.073729 0.68 0.61809 0.976 0.69291 0.998 0.57743 0.971 0.6915 0.998 20q loss 4 (7%) 52 0.37211 0.875 0.60228 0.971 0.57909 0.971 0.19154 0.773 0.11774 0.729 0.4752 0.944 1 1 0.88588 1 0.66602 0.998 0.78893 1 21q loss 17 (30%) 39 0.67073 0.998 0.18155 0.773 1 1 0.33314 0.846 0.63048 0.979 0.74673 0.998 0.68244 0.998 0.97165 1 0.93173 1 0.94213 1 22q loss 33 (59%) 23 0.17801 0.773 0.97068 1 0.065932 0.668 0.02144 0.513 0.96329 1 0.90225 1 0.71058 0.998 0.29009 0.808 0.46883 0.944 0.75831 0.998 xp loss 15 (27%) 41 0.64868 0.993 0.83695 1 0.75186 0.998 0.34464 0.862 0.9275 1 0.92785 1 0.44897 0.938 0.64634 0.993 0.49998 0.961 0.75996 0.998 xq loss 18 (32%) 38 0.76782 0.998 0.15757 0.759 0.75831 0.998 0.21606 0.773 0.23665 0.786 0.62086 0.976 0.45746 0.941 0.6456 0.993 0.53138 0.965 0.70871 0.998