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 37 (25%) 113 0.00302 1 0.00063999 0.304 0.00037 0.181 0.00245 1 0.055219 1 0.15959 1 0.0042 1 0.03321 1 1q gain 61 (41%) 89 0.43813 1 0.66396 1 0.82456 1 0.059349 1 0.12498 1 1 1 0.75282 1 0.31758 1 2p gain 46 (31%) 104 0.01367 1 0.0092699 1 0.01617 1 0.16732 1 0.059189 1 0.087379 1 0.083539 1 0.18026 1 2q gain 42 (28%) 108 0.11606 1 0.03307 1 0.2772 1 0.74584 1 0.50079 1 0.27762 1 0.12809 1 0.75942 1 3p gain 27 (18%) 123 0.02278 1 0.39997 1 0.0072399 1 0.0066199 1 0.062369 1 0.01893 1 0.03778 1 0.13413 1 3q gain 36 (24%) 114 0.0073499 1 0.18055 1 0.03115 1 0.03206 1 0.19174 1 0.16591 1 0.28423 1 0.69796 1 4p gain 3 (2%) 147 0.63593 1 0.19684 1 1 1 0.68088 1 NA NA NA NA NA NA NA NA 5p gain 6 (4%) 144 0.67239 1 0.02545 1 0.01116 1 0.0081799 1 0.01804 1 0.3513 1 0.01804 1 0.25067 1 5q gain 3 (2%) 147 0.77732 1 0.058769 1 0.03562 1 0.0417 1 NA NA NA NA NA NA NA NA 6p gain 28 (19%) 122 0.00054999 0.264 0.7519 1 0.01294 1 0.00080999 0.383 0.00434 1 0.00192 0.887 0.0386 1 0.02935 1 6q gain 23 (15%) 127 0.02336 1 0.883 1 0.01387 1 0.00025 0.123 0.066839 1 0.02661 1 0.16374 1 0.077609 1 7p gain 121 (81%) 29 0.00449 1 0.057389 1 0.00419 1 0.0083199 1 0.12808 1 0.11358 1 0.18685 1 0.58321 1 7q gain 105 (70%) 45 0.54733 1 0.068979 1 0.00476 1 0.01214 1 0.10566 1 0.03797 1 0.02796 1 0.1055 1 8p gain 110 (73%) 40 0.063679 1 0.0054799 1 3e-05 0.0154 0.00023 0.114 0.061989 1 0.02657 1 0.01532 1 0.065839 1 8q gain 111 (74%) 39 0.02035 1 0.00322 1 0.00013 0.0651 0.00025 0.123 0.00464 1 0.00328 1 0.0081299 1 0.0066499 1 9p gain 16 (11%) 134 0.2346 1 0.33526 1 0.15799 1 0.29703 1 0.61355 1 0.099449 1 0.32061 1 0.73728 1 9q gain 17 (11%) 133 0.15233 1 0.49999 1 1 1 0.079229 1 1 1 1 1 0.66009 1 0.30092 1 10p gain 6 (4%) 144 0.58281 1 0.092869 1 0.32195 1 0.34517 1 NA NA NA NA NA NA NA NA 10q gain 8 (5%) 142 0.59455 1 0.38713 1 0.36873 1 0.22519 1 NA NA NA NA NA NA NA NA 11p gain 10 (7%) 140 0.27335 1 0.18277 1 0.1655 1 0.051359 1 0.61361 1 0.56131 1 0.22891 1 0.34643 1 11q gain 4 (3%) 146 0.38657 1 0.14996 1 0.077599 1 0.01302 1 NA NA NA NA NA NA NA NA 12p gain 146 (97%) 4 0.19317 1 0.38802 1 0.80888 1 0.36842 1 0.069519 1 1 1 0.3598 1 0.89982 1 12q gain 100 (67%) 50 0.56564 1 0.84096 1 0.20502 1 0.33873 1 0.34812 1 0.8461 1 0.98633 1 0.75444 1 14q gain 51 (34%) 99 0.25279 1 0.23596 1 0.5854 1 0.3964 1 0.48001 1 0.71263 1 0.71 1 0.94853 1 15q gain 51 (34%) 99 0.04991 1 0.00215 0.987 9.9999e-06 0.00548 3e-05 0.0154 0.01886 1 0.01103 1 0.02621 1 0.02026 1 16p gain 16 (11%) 134 0.01197 1 0.079699 1 0.00425 1 0.01719 1 0.11046 1 0.01393 1 0.0287 1 0.03664 1 16q gain 14 (9%) 136 0.0075599 1 0.13874 1 0.0101 1 0.04889 1 0.10877 1 0.01403 1 0.02945 1 0.03746 1 17p gain 40 (27%) 110 9.9999e-06 0.00548 9.9999e-06 0.00548 9.9999e-06 0.00548 9.9999e-06 0.00548 0.00147 0.684 0.00052999 0.255 0.00062999 0.3 0.00209 0.961 17q gain 51 (34%) 99 0.00016 0.0798 6.9999e-05 0.0353 9.9999e-06 0.00548 9.9999e-06 0.00548 0.00034 0.167 0.00041 0.2 7.9999e-05 0.0402 0.00299 1 18p gain 4 (3%) 146 0.68841 1 0.070279 1 0.37704 1 0.78342 1 NA NA NA NA NA NA NA NA 19p gain 36 (24%) 114 0.0098299 1 4e-05 0.0204 6.9999e-05 0.0353 0.00083999 0.396 0.02525 1 0.088319 1 0.36858 1 0.25236 1 19q gain 29 (19%) 121 0.01617 1 0.00018 0.0896 2e-05 0.0103 0.00058999 0.282 0.19571 1 0.04847 1 0.36969 1 0.22027 1 20p gain 34 (23%) 116 0.0054399 1 0.11294 1 0.04119 1 0.28604 1 0.10053 1 0.083769 1 0.1105 1 0.27209 1 20q gain 40 (27%) 110 0.0066799 1 0.0058399 1 0.0068499 1 0.053169 1 0.062409 1 0.12388 1 0.1081 1 0.15024 1 21q gain 125 (83%) 25 0.40244 1 0.27278 1 0.084039 1 0.23823 1 0.090889 1 0.21456 1 0.45243 1 0.25373 1 22q gain 38 (25%) 112 9.9999e-06 0.00548 0.00138 0.644 2e-05 0.0103 9.9999e-06 0.00548 0.051959 1 0.00276 1 0.02079 1 0.00137 0.641 xq gain 22 (15%) 128 0.00187 0.866 0.01773 1 0.00081999 0.387 0.00363 1 0.02088 1 0.04938 1 0.15467 1 0.37745 1 1p loss 18 (12%) 132 0.12085 1 0.56972 1 0.64897 1 0.88719 1 0.34528 1 0.35165 1 0.1138 1 0.50773 1 1q loss 8 (5%) 142 0.34424 1 0.24258 1 0.29106 1 0.21699 1 0.0422 1 0.01423 1 0.00381 1 0.077209 1 2p loss 5 (3%) 145 0.86206 1 0.37737 1 1 1 1 1 0.23146 1 1 1 0.20694 1 0.67887 1 2q loss 6 (4%) 144 0.44401 1 0.68078 1 0.55641 1 0.90066 1 0.23053 1 0.20458 1 0.7022 1 0.60094 1 3p loss 30 (20%) 120 0.93539 1 0.03028 1 0.00151 0.701 0.00342 1 0.01949 1 0.03639 1 0.11638 1 0.18656 1 3q loss 22 (15%) 128 0.74075 1 0.73875 1 0.085379 1 0.057239 1 0.054789 1 0.18414 1 0.086729 1 0.53867 1 4p loss 92 (61%) 58 0.62969 1 0.0455 1 0.0312 1 0.16321 1 0.14043 1 0.13863 1 0.48135 1 0.31896 1 4q loss 108 (72%) 42 0.066899 1 0.01078 1 0.01079 1 0.01217 1 0.12039 1 0.10705 1 0.62634 1 0.50816 1 5p loss 103 (69%) 47 0.11332 1 0.20845 1 0.11458 1 0.1316 1 0.52952 1 0.12511 1 0.23687 1 0.30787 1 5q loss 101 (67%) 49 0.058979 1 0.062709 1 0.014 1 0.00338 1 0.5005 1 0.04862 1 0.10279 1 0.15423 1 6p loss 13 (9%) 137 0.26546 1 0.037 1 0.16057 1 0.01419 1 0.92453 1 0.56298 1 0.54613 1 0.70503 1 6q loss 16 (11%) 134 0.12111 1 0.0093999 1 0.04489 1 0.00103 0.484 0.94971 1 0.62612 1 0.76301 1 0.78784 1 8p loss 12 (8%) 138 0.35647 1 0.050689 1 0.01049 1 0.04739 1 0.42186 1 0.28066 1 0.055289 1 0.32711 1 8q loss 5 (3%) 145 0.18765 1 0.02393 1 0.0022 1 0.01254 1 NA NA NA NA NA NA NA NA 9p loss 63 (42%) 87 0.03283 1 1 1 0.86846 1 0.43659 1 0.43611 1 0.54785 1 0.28506 1 0.5939 1 9q loss 58 (39%) 92 0.00032 0.157 0.33841 1 0.30824 1 0.01729 1 0.67577 1 0.03384 1 0.12665 1 0.30904 1 10p loss 77 (51%) 73 0.02157 1 0.00042 0.204 0.00034 0.167 0.0055099 1 0.96337 1 0.44734 1 0.4455 1 0.44258 1 10q loss 72 (48%) 78 0.0085799 1 5.9999e-05 0.0304 0.00023 0.114 0.00258 1 0.3633 1 0.076539 1 0.11444 1 0.076459 1 11p loss 98 (65%) 52 0.0086499 1 0.18263 1 0.00048 0.232 0.00051999 0.251 0.00047 0.227 0.00046 0.223 0.0050099 1 0.017 1 11q loss 115 (77%) 35 9.9999e-06 0.00548 0.12347 1 9.9999e-05 0.0502 2e-05 0.0103 0.00019 0.0944 0.0067299 1 0.0080299 1 0.01684 1 13q loss 113 (75%) 37 0.04412 1 0.28883 1 0.03232 1 0.0014 0.652 0.13235 1 0.13358 1 0.0060799 1 0.04127 1 14q loss 20 (13%) 130 0.12077 1 0.00059999 0.286 0.00482 1 5e-05 0.0254 0.053789 1 0.00484 1 0.01117 1 0.058969 1 15q loss 29 (19%) 121 0.0062999 1 3e-05 0.0154 9.9999e-06 0.00548 9.9999e-06 0.00548 0.01068 1 0.00273 1 0.00066999 0.318 0.0011 0.516 16p loss 44 (29%) 106 0.14885 1 0.0067999 1 0.080759 1 0.26164 1 0.10667 1 0.28717 1 0.39578 1 0.17852 1 16q loss 51 (34%) 99 0.078519 1 0.066209 1 0.23237 1 0.48384 1 0.077159 1 0.28621 1 0.39733 1 0.35185 1 17p loss 37 (25%) 113 9.9999e-06 0.00548 0.03839 1 0.00428 1 0.00014 0.07 0.02162 1 0.078559 1 0.00298 1 0.02154 1 17q loss 16 (11%) 134 0.0056699 1 0.12914 1 0.01972 1 0.02798 1 0.077339 1 0.04828 1 0.01569 1 0.075159 1 18p loss 116 (77%) 34 0.69204 1 0.075259 1 0.04427 1 0.24282 1 0.12432 1 0.098909 1 0.084409 1 0.10802 1 18q loss 122 (81%) 28 0.085519 1 0.3175 1 0.066319 1 0.12361 1 0.055629 1 0.067679 1 0.01138 1 0.01054 1 19p loss 50 (33%) 100 9.9999e-06 0.00548 9.9999e-06 0.00548 9.9999e-06 0.00548 9.9999e-06 0.00548 9.9999e-06 0.00548 9.9999e-06 0.00548 9.9999e-06 0.00548 9.9999e-06 0.00548 19q loss 53 (35%) 97 9.9999e-06 0.00548 9.9999e-06 0.00548 9.9999e-06 0.00548 9.9999e-06 0.00548 9.9999e-06 0.00548 9.9999e-06 0.00548 9.9999e-06 0.00548 9.9999e-06 0.00548 20p loss 30 (20%) 120 0.2349 1 0.18841 1 0.19852 1 0.17082 1 0.70238 1 0.13632 1 0.26808 1 0.15947 1 20q loss 15 (10%) 135 0.58643 1 0.4899 1 0.19911 1 0.26956 1 0.2947 1 0.12012 1 0.10053 1 0.39253 1 22q loss 45 (30%) 105 0.00268 1 9.9999e-06 0.00548 9.9999e-06 0.00548 9.9999e-06 0.00548 0.00249 1 2e-05 0.0103 5e-05 0.0254 0.00054999 0.264 xq loss 29 (19%) 121 0.00033 0.162 0.00194 0.894 0.16236 1 0.096589 1 0.35555 1 0.24295 1 0.084809 1 0.15737 1