Clinical Features CN_CNMF METHLYATION_CNMF RPPA_CNMF RPPA_CHIERARCHICAL MRNASEQ_CNMF MRNASEQ_CHIERARCHICAL MIRSEQ_CNMF MIRSEQ_CHIERARCHICAL MIRSEQ_MATURE_CNMF MIRSEQ_MATURE_CHIERARCHICAL nMutated (%) 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 TP53 364 (71%) 147 9.9999e-06 0.00031 9.9999e-06 0.00031 0.1419 0.456 0.74814 0.941 9.9999e-06 0.00031 9.9999e-06 0.00031 9.9999e-06 0.00031 9.9999e-06 0.00031 0.00161 0.0256 9.9999e-06 0.00031 CDKN2A 112 (22%) 399 4e-05 0.00108 9.9999e-06 0.00031 0.01055 0.109 0.81355 0.976 0.086259 0.332 9.9999e-06 0.00031 0.0452 0.252 0.04215 0.24 0.90839 1 0.01532 0.14 NSD1 62 (12%) 449 0.0072199 0.0915 9.9999e-06 0.00031 0.0072899 0.0915 0.01435 0.135 9.9999e-06 0.00031 9.9999e-06 0.00031 0.00251 0.038 0.00013 0.00322 0.21907 0.597 0.00012 0.0031 CASP8 54 (11%) 457 9.9999e-06 0.00031 9.9999e-06 0.00031 0.087709 0.336 0.34959 0.699 9.9999e-06 0.00031 9.9999e-06 0.00031 9.9999e-06 0.00031 0.57057 0.857 0.11177 0.396 0.01077 0.109 MLL2 81 (16%) 430 0.17998 0.547 0.02241 0.169 0.65282 0.905 0.51967 0.826 0.21435 0.595 0.29034 0.666 0.24611 0.623 0.052579 0.276 0.54338 0.841 0.11309 0.398 TGFBR2 24 (5%) 487 0.00161 0.0256 0.02896 0.195 0.56359 0.856 0.90108 0.999 0.43662 0.763 0.95252 1 0.30722 0.671 0.78127 0.963 0.43622 0.763 0.41731 0.75 HLA-B 24 (5%) 487 0.00273 0.0403 0.0084399 0.0987 0.8521 0.986 0.22444 0.597 0.0263 0.182 0.070219 0.311 0.069649 0.311 0.19399 0.553 0.0068399 0.0902 0.04645 0.255 FBXW7 33 (6%) 478 0.061179 0.299 0.058299 0.296 0.1821 0.55 0.23233 0.608 0.097909 0.361 0.44277 0.768 0.47611 0.789 0.52276 0.827 0.10438 0.381 0.42167 0.75 NOTCH1 90 (18%) 421 0.03433 0.22 2e-05 0.000564 0.30752 0.671 0.059169 0.296 0.00028 0.00599 0.00319 0.046 0.00017 0.00405 0.078909 0.328 0.068559 0.308 0.01182 0.115 FAT1 112 (22%) 399 0.0301 0.199 9.9999e-06 0.00031 0.92462 1 0.48782 0.803 0.01859 0.154 0.00071999 0.0131 0.02637 0.182 0.59212 0.87 0.25074 0.627 0.26903 0.654 JUB 34 (7%) 477 0.89389 0.995 0.4003 0.735 0.085339 0.332 0.63745 0.904 0.11938 0.409 0.77182 0.954 0.0298 0.199 0.35486 0.705 0.32069 0.684 0.39319 0.73 ZNF750 21 (4%) 490 0.19017 0.553 0.01623 0.144 0.62317 0.897 0.28545 0.666 0.03793 0.228 0.0083199 0.0987 0.00026 0.00576 0.21529 0.595 1 1 0.19856 0.557 NFE2L2 27 (5%) 484 0.54059 0.841 2e-05 0.000564 0.083149 0.332 0.87431 0.986 0.91172 1 0.28439 0.666 0.096429 0.358 0.34277 0.694 0.81747 0.976 0.63262 0.902 HLA-A 22 (4%) 489 0.00067999 0.0128 0.0182 0.154 0.96391 1 0.63976 0.905 0.03925 0.232 0.00065999 0.0128 0.30688 0.671 0.03106 0.203 0.317 0.683 0.02158 0.169 EPHA2 24 (5%) 487 0.32375 0.687 0.00026 0.00576 0.97176 1 0.93022 1 0.37356 0.722 0.31737 0.683 0.66145 0.906 0.18885 0.553 0.43798 0.763 0.32109 0.684 RAC1 15 (3%) 496 0.0039 0.0537 0.03638 0.226 0.70504 0.925 0.83423 0.976 0.00389 0.0537 0.078409 0.328 1 1 0.34396 0.695 0.46249 0.781 0.58518 0.864 HRAS 31 (6%) 480 9.9999e-06 0.00031 9.9999e-06 0.00031 0.57683 0.858 0.65093 0.905 0.00050999 0.0102 0.02536 0.181 0.00043 0.00889 0.10916 0.391 0.57031 0.857 0.49081 0.803 EP300 38 (7%) 473 0.03699 0.227 0.01651 0.144 0.39547 0.73 0.085109 0.332 0.055669 0.29 0.059859 0.297 0.31268 0.678 0.04214 0.24 0.42925 0.758 0.23532 0.61 OR6C65 16 (3%) 495 0.96304 1 0.27341 0.657 0.64467 0.905 0.4321 0.759 0.67758 0.91 0.74759 0.941 0.04152 0.24 0.6949 0.919 0.077389 0.327 0.91535 1 PIK3CA 94 (18%) 417 0.058819 0.296 0.15931 0.504 0.98276 1 0.062769 0.299 0.092089 0.348 0.32921 0.69 0.090149 0.343 0.02295 0.169 0.093229 0.35 0.1936 0.553 PTEN 14 (3%) 497 0.78933 0.969 0.13078 0.434 0.4042 0.739 0.83392 0.976 0.66167 0.906 0.23171 0.608 0.59069 0.87 0.22402 0.597 0.74426 0.94 0.079369 0.328 RASA1 18 (4%) 493 0.3755 0.722 0.18884 0.553 0.18458 0.55 0.7128 0.928 0.2168 0.595 0.20526 0.573 0.87241 0.986 0.62654 0.897 0.47517 0.789 0.67946 0.91 MAPK1 9 (2%) 502 0.0115 0.113 0.62325 0.897 0.60192 0.882 0.83251 0.976 0.70599 0.925 0.91893 1 0.19245 0.553 0.83606 0.976 0.83972 0.976 0.16851 0.525 NUDT11 9 (2%) 502 0.88977 0.992 0.6111 0.889 0.36377 0.711 0.73296 0.934 0.90982 1 0.6786 0.91 0.80873 0.976 0.40083 0.735 0.88892 0.992 0.79233 0.969 KDM6A 17 (3%) 494 0.18997 0.553 0.37601 0.722 0.04434 0.25 1 1 0.92939 1 0.36273 0.711 0.65126 0.905 0.90722 1 0.40668 0.739 0.33061 0.69 RB1 17 (3%) 494 0.33657 0.693 0.19662 0.557 0.23836 0.616 0.27321 0.657 0.01855 0.154 0.2529 0.627 0.10076 0.37 0.26407 0.645 0.13158 0.434 0.30368 0.671 KEAP1 22 (4%) 489 0.41936 0.75 0.13178 0.434 0.76644 0.952 0.8269 0.976 0.33169 0.69 0.00106 0.0178 0.7869 0.968 0.04113 0.24 0.36984 0.719 0.31844 0.683 KRT17 6 (1%) 505 0.93167 1 0.29445 0.666 0.30342 0.671 0.65511 0.905 0.77239 0.954 0.29386 0.666 0.97375 1 0.88108 0.99 0.061189 0.299 1 1 RHOA 10 (2%) 501 0.30084 0.671 0.64782 0.905 0.39496 0.73 0.24196 0.617 1 1 1 1 0.86834 0.986 0.56491 0.856 0.73309 0.934 0.65832 0.906 PTPN14 16 (3%) 495 0.4514 0.771 0.02772 0.189 0.19818 0.557 0.57889 0.859 0.36002 0.711 0.66938 0.906 0.03471 0.22 0.50242 0.813 0.03782 0.228 0.29414 0.666 KRTAP5-5 4 (1%) 507 0.64206 0.905 0.91823 1 1 1 0.79521 0.969 0.01454 0.135 0.54682 0.841 0.01062 0.109 0.26041 0.638 1 1 0.35432 0.705 ZNF623 12 (2%) 499 0.71956 0.931 0.6647 0.906 0.23982 0.617 0.34027 0.694 0.83037 0.976 0.10773 0.391 0.82186 0.976 0.057819 0.296 0.8831 0.99 0.073069 0.319 TIGD4 7 (1%) 504 0.65498 0.905 0.93848 1 0.81598 0.976 0.83504 0.976 0.50353 0.813 0.39141 0.73 0.85603 0.986 0.39489 0.73 0.5762 0.858 0.53918 0.841 NAP1L2 7 (1%) 504 0.94428 1 0.062709 0.299 0.51391 0.82 1 1 0.3952 0.73 0.44784 0.769 0.97652 1 0.5677 0.857 0.30759 0.671 0.88889 0.992 CUL3 16 (3%) 495 0.03478 0.22 0.01006 0.108 0.5079 0.815 0.73269 0.934 0.27523 0.659 0.01933 0.158 0.04626 0.255 0.90227 0.999 0.46353 0.781 0.4474 0.769 CREBBP 34 (7%) 477 0.11615 0.405 0.45058 0.771 0.3052 0.671 0.93223 1 0.085199 0.332 0.073939 0.321 0.71207 0.928 0.02321 0.169 0.1206 0.409 0.01146 0.113 VEZF1 8 (2%) 503 0.44368 0.768 0.050589 0.268 0.96386 1 0.058769 0.296 0.86312 0.986 0.49449 0.803 0.02274 0.169 0.26031 0.638 0.27925 0.664 0.63115 0.902 MLL4 19 (4%) 492 0.00096999 0.0167 0.00174 0.027 0.8322 0.976 0.38242 0.727 0.12539 0.42 0.1695 0.525 0.02059 0.164 0.91542 1 0.12268 0.413 0.62575 0.897 IRS4 17 (3%) 494 0.0198 0.159 0.55174 0.847 0.19458 0.553 0.79081 0.969 0.40916 0.742 0.065929 0.303 0.54646 0.841 0.050009 0.267 0.03525 0.221 0.13233 0.434 HUWE1 46 (9%) 465 0.0089799 0.101 0.00081999 0.0145 0.72818 0.934 0.63657 0.904 0.23427 0.61 0.080529 0.329 0.74327 0.94 0.46236 0.781 0.70981 0.928 0.61726 0.894 THSD7A 32 (6%) 479 0.68582 0.912 0.12049 0.409 0.47079 0.788 0.24913 0.627 0.00497 0.067 0.065679 0.303 0.27002 0.654 0.03846 0.229 0.080669 0.329 0.0232 0.169 C3ORF59 10 (2%) 501 0.51429 0.82 0.34546 0.695 NA NA NA NA 0.83368 0.976 0.55777 0.854 0.9891 1 0.72437 0.934 1 1 0.37844 0.724 DYSF 20 (4%) 491 0.64675 0.905 0.0096999 0.106 0.56048 0.855 0.73224 0.934 0.19415 0.553 0.0090999 0.101 0.60588 0.885 0.21939 0.597 0.29341 0.666 0.16089 0.504 ZNF233 9 (2%) 502 0.73357 0.934 0.38123 0.727 0.29739 0.668 0.28697 0.666 0.33904 0.694 1 1 0.18271 0.55 0.64087 0.905 0.17533 0.535 0.28542 0.666 KIAA1267 11 (2%) 500 0.0073799 0.0915 0.66822 0.906 0.085639 0.332 0.062079 0.299 0.97467 1 1 1 0.39124 0.73 0.92727 1 0.4714 0.788 0.67666 0.91 ASXL1 16 (3%) 495 0.62337 0.897 0.98471 1 0.21611 0.595 0.87341 0.986 0.076439 0.327 0.01766 0.152 0.066529 0.303 0.065609 0.303 0.56153 0.855 0.077639 0.327 SMAD4 13 (3%) 498 0.25 0.627 0.34614 0.695 0.11991 0.409 0.87405 0.986 0.33987 0.694 0.56832 0.857 0.18456 0.55 0.49449 0.803 0.50858 0.815 0.23207 0.608 GAGE2A 4 (1%) 507 0.0086199 0.099 0.094829 0.354 0.46967 0.788 0.79422 0.969 0.84023 0.976 0.48446 0.801 0.17364 0.533 0.685 0.912 1 1 1 1 EMG1 3 (1%) 508 0.84103 0.976 0.86892 0.986 NA NA NA NA 0.22426 0.597 0.74125 0.94 0.52868 0.832 1 1 NA NA NA NA PIK3R1 8 (2%) 503 0.86962 0.986 0.3316 0.69 NA NA NA NA 0.070909 0.312 0.11147 0.396 0.3953 0.73 0.29421 0.666 1 1 0.34175 0.694 KRTAP5-7 5 (1%) 506 0.83528 0.976 0.93707 1 NA NA NA NA 0.68751 0.913 0.24184 0.617 0.66419 0.906 0.02304 0.169 0.69517 0.919 0.54676 0.841 SLC9A6 5 (1%) 506 0.13483 0.44 0.081819 0.332 1 1 0.11458 0.401 0.02636 0.182 0.36519 0.712 0.4223 0.75 0.22942 0.608 0.52267 0.827 0.075739 0.326 ELF4 7 (1%) 504 0.76985 0.954 0.7968 0.969 0.2968 0.668 0.33577 0.693 0.87587 0.986 0.86034 0.986 0.14518 0.464 0.80185 0.973 0.39109 0.73 0.61625 0.894 CTCF 15 (3%) 496 0.0122 0.116 0.0076899 0.0935 0.90204 0.999 0.52638 0.83 0.60698 0.885 0.41183 0.744 0.6968 0.919 0.71682 0.93 1 1 0.7161 0.93 HNRNPL 11 (2%) 500 0.4579 0.778 0.28048 0.664 0.37488 0.722 0.45609 0.777 0.6617 0.906 0.33362 0.692 0.15112 0.48 0.01561 0.14 0.29205 0.666 0.65465 0.905 ZFP36L2 8 (2%) 503 0.22285 0.597 0.04814 0.262 0.70553 0.925 0.35624 0.706 0.86409 0.986 0.49388 0.803 0.41573 0.749 0.67768 0.91 1 1 0.75796 0.944 MYH9 21 (4%) 490 0.25211 0.627 0.36327 0.711 0.066509 0.303 0.75257 0.943 0.93053 1 0.74222 0.94 0.82233 0.976 0.40499 0.739 0.58111 0.86 0.7543 0.943 NOTCH2 21 (4%) 490 0.92368 1 0.98347 1 0.02396 0.173 0.48806 0.803 0.24341 0.618 0.44731 0.769 0.57384 0.858 0.66766 0.906 0.75653 0.944 0.39039 0.73 NCOR1 17 (3%) 494 0.86814 0.986 0.42081 0.75 0.47584 0.789 0.49405 0.803 0.8177 0.976 0.25405 0.628 0.82488 0.976 0.22233 0.597 0.86751 0.986 0.81286 0.976 AK5 13 (3%) 498 0.75358 0.943 0.28021 0.664 0.426 0.755 0.54505 0.841 0.84739 0.982 0.57473 0.858 0.04978 0.267 0.085149 0.332 0.17051 0.526 0.082429 0.332 SPTY2D1 10 (2%) 501 0.10907 0.391 0.13628 0.442 0.065039 0.303 0.28597 0.666 0.32575 0.689 0.8584 0.986 0.32678 0.689 0.30991 0.674 0.50522 0.814 0.54318 0.841 PIWIL2 8 (2%) 503 0.73143 0.934 0.11884 0.409 0.81989 0.976 0.68248 0.912 0.18539 0.55 0.53237 0.836 0.13997 0.452 0.068469 0.308 0.43049 0.758 0.16013 0.504