This pipeline computes the correlation between significant arm-level copy number variations (cnvs) and molecular subtypes.
Testing the association between copy number variation 80 arm-level events and 14 molecular subtypes across 579 patients, 42 significant findings detected with P value < 0.05 and Q value < 0.25.
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1q gain cnv correlated to 'CN_CNMF'.
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2p gain cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', and 'MRNASEQ_CNMF'.
-
2q gain cnv correlated to 'MRNA_CHIERARCHICAL', 'CN_CNMF', and 'METHLYATION_CNMF'.
-
3q gain cnv correlated to 'CN_CNMF'.
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6p gain cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
-
6q gain cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
-
7p gain cnv correlated to 'CN_CNMF'.
-
7q gain cnv correlated to 'CN_CNMF'.
-
10p gain cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
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12p gain cnv correlated to 'MRNA_CNMF', 'CN_CNMF', and 'METHLYATION_CNMF'.
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12q gain cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
-
13q gain cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
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19p gain cnv correlated to 'CN_CNMF'.
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19q gain cnv correlated to 'CN_CNMF'.
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20p gain cnv correlated to 'CN_CNMF' and 'METHLYATION_CNMF'.
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20q gain cnv correlated to 'MRNA_CNMF', 'MIR_CHIERARCHICAL', 'CN_CNMF', and 'METHLYATION_CNMF'.
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5p loss cnv correlated to 'MRNASEQ_CNMF'.
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5q loss cnv correlated to 'METHLYATION_CNMF'.
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9q loss cnv correlated to 'CN_CNMF'.
-
13q loss cnv correlated to 'METHLYATION_CNMF'.
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14q loss cnv correlated to 'CN_CNMF'.
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15q loss cnv correlated to 'MIR_CNMF', 'CN_CNMF', and 'METHLYATION_CNMF'.
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22q loss cnv correlated to 'CN_CNMF'.
Clinical Features |
MRNA CNMF |
MRNA CHIERARCHICAL |
MIR CNMF |
MIR CHIERARCHICAL |
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 | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | |
2p gain | 186 (32%) | 393 |
1e-05 (0.011) |
2e-05 (0.0215) |
0.886 (1.00) |
0.00052 (0.542) |
1e-05 (0.011) |
1e-05 (0.011) |
0.0357 (1.00) |
0.0778 (1.00) |
0.00016 (0.17) |
0.00178 (1.00) |
0.822 (1.00) |
0.0255 (1.00) |
0.675 (1.00) |
0.608 (1.00) |
20q gain | 328 (57%) | 251 |
3e-05 (0.0321) |
0.00024 (0.253) |
0.668 (1.00) |
8e-05 (0.0852) |
1e-05 (0.011) |
1e-05 (0.011) |
0.66 (1.00) |
0.0822 (1.00) |
0.00915 (1.00) |
0.138 (1.00) |
0.257 (1.00) |
0.00516 (1.00) |
1 (1.00) |
0.495 (1.00) |
2q gain | 155 (27%) | 424 |
0.00057 (0.592) |
7e-05 (0.0746) |
1 (1.00) |
0.00739 (1.00) |
1e-05 (0.011) |
0.00023 (0.243) |
0.109 (1.00) |
0.322 (1.00) |
0.00368 (1.00) |
0.0204 (1.00) |
0.609 (1.00) |
0.00653 (1.00) |
1 (1.00) |
0.746 (1.00) |
12p gain | 255 (44%) | 324 |
0.0001 (0.106) |
0.00154 (1.00) |
0.741 (1.00) |
0.001 (1.00) |
1e-05 (0.011) |
1e-05 (0.011) |
0.305 (1.00) |
0.317 (1.00) |
0.00054 (0.562) |
0.00378 (1.00) |
0.226 (1.00) |
0.00026 (0.274) |
0.415 (1.00) |
0.251 (1.00) |
15q loss | 280 (48%) | 299 |
0.00049 (0.511) |
0.0163 (1.00) |
8e-05 (0.0852) |
0.00032 (0.336) |
1e-05 (0.011) |
1e-05 (0.011) |
0.378 (1.00) |
0.813 (1.00) |
0.0662 (1.00) |
0.612 (1.00) |
0.00813 (1.00) |
0.00063 (0.654) |
0.0427 (1.00) |
0.623 (1.00) |
6p gain | 170 (29%) | 409 |
0.513 (1.00) |
0.0042 (1.00) |
0.904 (1.00) |
0.0134 (1.00) |
1e-05 (0.011) |
9e-05 (0.0957) |
0.864 (1.00) |
0.23 (1.00) |
0.159 (1.00) |
0.00798 (1.00) |
0.361 (1.00) |
0.0645 (1.00) |
0.415 (1.00) |
0.762 (1.00) |
6q gain | 97 (17%) | 482 |
0.66 (1.00) |
0.0517 (1.00) |
0.821 (1.00) |
0.0221 (1.00) |
1e-05 (0.011) |
1e-05 (0.011) |
0.789 (1.00) |
0.997 (1.00) |
0.00475 (1.00) |
0.0218 (1.00) |
0.197 (1.00) |
0.0295 (1.00) |
0.381 (1.00) |
0.576 (1.00) |
10p gain | 188 (32%) | 391 |
0.00417 (1.00) |
0.0217 (1.00) |
0.678 (1.00) |
0.376 (1.00) |
1e-05 (0.011) |
0.00021 (0.222) |
0.979 (1.00) |
0.00947 (1.00) |
0.0107 (1.00) |
0.125 (1.00) |
0.557 (1.00) |
0.00066 (0.684) |
1 (1.00) |
0.941 (1.00) |
12q gain | 177 (31%) | 402 |
0.0046 (1.00) |
0.0565 (1.00) |
0.626 (1.00) |
0.0341 (1.00) |
1e-05 (0.011) |
2e-05 (0.0215) |
0.019 (1.00) |
0.221 (1.00) |
0.00192 (1.00) |
0.009 (1.00) |
0.102 (1.00) |
0.0105 (1.00) |
0.0743 (1.00) |
0.29 (1.00) |
13q gain | 60 (10%) | 519 |
0.00741 (1.00) |
0.00035 (0.367) |
0.586 (1.00) |
0.025 (1.00) |
6e-05 (0.0641) |
3e-05 (0.0321) |
0.492 (1.00) |
0.409 (1.00) |
0.23 (1.00) |
0.427 (1.00) |
0.151 (1.00) |
0.0987 (1.00) |
0.455 (1.00) |
|
20p gain | 289 (50%) | 290 |
0.00142 (1.00) |
0.0011 (1.00) |
0.723 (1.00) |
0.00029 (0.305) |
1e-05 (0.011) |
1e-05 (0.011) |
0.332 (1.00) |
0.371 (1.00) |
0.00373 (1.00) |
0.166 (1.00) |
0.225 (1.00) |
0.00341 (1.00) |
0.391 (1.00) |
0.524 (1.00) |
1q gain | 221 (38%) | 358 |
0.832 (1.00) |
0.269 (1.00) |
0.705 (1.00) |
0.227 (1.00) |
1e-05 (0.011) |
0.00864 (1.00) |
0.502 (1.00) |
0.548 (1.00) |
0.435 (1.00) |
0.277 (1.00) |
0.229 (1.00) |
0.106 (1.00) |
0.198 (1.00) |
0.562 (1.00) |
3q gain | 275 (47%) | 304 |
0.934 (1.00) |
0.867 (1.00) |
0.344 (1.00) |
0.427 (1.00) |
1e-05 (0.011) |
0.0163 (1.00) |
0.639 (1.00) |
0.258 (1.00) |
0.694 (1.00) |
0.927 (1.00) |
0.253 (1.00) |
0.0893 (1.00) |
1 (1.00) |
0.635 (1.00) |
7p gain | 181 (31%) | 398 |
0.589 (1.00) |
0.475 (1.00) |
0.0848 (1.00) |
0.108 (1.00) |
1e-05 (0.011) |
0.00025 (0.264) |
0.646 (1.00) |
0.5 (1.00) |
0.53 (1.00) |
0.683 (1.00) |
0.966 (1.00) |
0.119 (1.00) |
1 (1.00) |
0.762 (1.00) |
7q gain | 203 (35%) | 376 |
0.651 (1.00) |
0.0846 (1.00) |
0.3 (1.00) |
0.38 (1.00) |
1e-05 (0.011) |
0.00156 (1.00) |
0.46 (1.00) |
0.248 (1.00) |
0.925 (1.00) |
0.643 (1.00) |
0.151 (1.00) |
0.628 (1.00) |
0.646 (1.00) |
0.369 (1.00) |
19p gain | 171 (30%) | 408 |
0.0757 (1.00) |
0.452 (1.00) |
0.517 (1.00) |
0.115 (1.00) |
2e-05 (0.0215) |
0.0265 (1.00) |
0.0566 (1.00) |
0.324 (1.00) |
0.19 (1.00) |
0.579 (1.00) |
0.269 (1.00) |
0.31 (1.00) |
1 (1.00) |
0.744 (1.00) |
19q gain | 161 (28%) | 418 |
0.259 (1.00) |
0.753 (1.00) |
0.907 (1.00) |
0.169 (1.00) |
6e-05 (0.0641) |
0.133 (1.00) |
0.476 (1.00) |
0.462 (1.00) |
0.205 (1.00) |
0.438 (1.00) |
0.271 (1.00) |
0.674 (1.00) |
0.594 (1.00) |
0.722 (1.00) |
5p loss | 133 (23%) | 446 |
0.0747 (1.00) |
0.0313 (1.00) |
0.539 (1.00) |
0.0873 (1.00) |
0.0124 (1.00) |
0.00702 (1.00) |
0.0887 (1.00) |
0.0573 (1.00) |
0.00018 (0.191) |
0.047 (1.00) |
0.569 (1.00) |
0.0499 (1.00) |
1 (1.00) |
0.905 (1.00) |
5q loss | 223 (39%) | 356 |
0.00042 (0.439) |
0.00159 (1.00) |
0.708 (1.00) |
0.0129 (1.00) |
0.00042 (0.439) |
1e-05 (0.011) |
0.034 (1.00) |
0.0936 (1.00) |
0.0011 (1.00) |
0.147 (1.00) |
0.62 (1.00) |
0.00675 (1.00) |
0.378 (1.00) |
0.719 (1.00) |
9q loss | 286 (49%) | 293 |
0.00713 (1.00) |
0.013 (1.00) |
0.222 (1.00) |
0.0344 (1.00) |
1e-05 (0.011) |
0.00538 (1.00) |
0.609 (1.00) |
0.682 (1.00) |
0.00734 (1.00) |
0.0517 (1.00) |
0.226 (1.00) |
0.0576 (1.00) |
1 (1.00) |
0.625 (1.00) |
13q loss | 310 (54%) | 269 |
0.0297 (1.00) |
0.00822 (1.00) |
0.804 (1.00) |
0.0175 (1.00) |
0.0515 (1.00) |
1e-05 (0.011) |
0.00566 (1.00) |
0.344 (1.00) |
0.467 (1.00) |
0.42 (1.00) |
0.217 (1.00) |
0.535 (1.00) |
0.666 (1.00) |
0.15 (1.00) |
14q loss | 215 (37%) | 364 |
0.25 (1.00) |
0.191 (1.00) |
0.967 (1.00) |
0.398 (1.00) |
1e-05 (0.011) |
0.00367 (1.00) |
0.981 (1.00) |
0.607 (1.00) |
0.00374 (1.00) |
0.0482 (1.00) |
0.855 (1.00) |
0.402 (1.00) |
0.381 (1.00) |
0.224 (1.00) |
22q loss | 430 (74%) | 149 |
0.00242 (1.00) |
0.093 (1.00) |
0.0369 (1.00) |
0.127 (1.00) |
0.00015 (0.159) |
0.00194 (1.00) |
0.0855 (1.00) |
0.0239 (1.00) |
0.0863 (1.00) |
0.129 (1.00) |
0.0411 (1.00) |
0.574 (1.00) |
0.135 (1.00) |
0.107 (1.00) |
1p gain | 168 (29%) | 411 |
0.0804 (1.00) |
0.349 (1.00) |
0.122 (1.00) |
0.73 (1.00) |
0.00038 (0.398) |
0.183 (1.00) |
0.105 (1.00) |
0.263 (1.00) |
0.611 (1.00) |
0.949 (1.00) |
0.252 (1.00) |
0.683 (1.00) |
0.231 (1.00) |
0.525 (1.00) |
3p gain | 160 (28%) | 419 |
0.437 (1.00) |
0.449 (1.00) |
0.07 (1.00) |
0.528 (1.00) |
0.0116 (1.00) |
0.786 (1.00) |
1 (1.00) |
0.383 (1.00) |
0.66 (1.00) |
0.687 (1.00) |
0.991 (1.00) |
0.819 (1.00) |
1 (1.00) |
0.812 (1.00) |
4p gain | 60 (10%) | 519 |
0.246 (1.00) |
0.192 (1.00) |
0.00499 (1.00) |
0.0608 (1.00) |
0.017 (1.00) |
0.119 (1.00) |
0.461 (1.00) |
0.395 (1.00) |
0.606 (1.00) |
0.84 (1.00) |
0.323 (1.00) |
0.018 (1.00) |
1 (1.00) |
0.572 (1.00) |
4q gain | 32 (6%) | 547 |
0.494 (1.00) |
0.764 (1.00) |
0.212 (1.00) |
0.08 (1.00) |
0.00461 (1.00) |
0.00775 (1.00) |
0.35 (1.00) |
0.226 (1.00) |
0.763 (1.00) |
0.857 (1.00) |
0.227 (1.00) |
0.064 (1.00) |
||
5p gain | 199 (34%) | 380 |
0.567 (1.00) |
0.71 (1.00) |
0.855 (1.00) |
0.762 (1.00) |
0.00041 (0.429) |
0.194 (1.00) |
0.495 (1.00) |
0.0721 (1.00) |
0.127 (1.00) |
0.54 (1.00) |
0.179 (1.00) |
0.575 (1.00) |
0.666 (1.00) |
0.216 (1.00) |
5q gain | 60 (10%) | 519 |
0.0589 (1.00) |
0.196 (1.00) |
0.822 (1.00) |
0.892 (1.00) |
0.845 (1.00) |
0.496 (1.00) |
0.464 (1.00) |
0.369 (1.00) |
0.71 (1.00) |
0.407 (1.00) |
0.382 (1.00) |
0.791 (1.00) |
0.481 (1.00) |
|
8p gain | 119 (21%) | 460 |
0.0679 (1.00) |
0.0038 (1.00) |
0.399 (1.00) |
0.421 (1.00) |
0.693 (1.00) |
0.808 (1.00) |
0.137 (1.00) |
0.00336 (1.00) |
0.618 (1.00) |
1 (1.00) |
0.133 (1.00) |
0.493 (1.00) |
0.221 (1.00) |
0.101 (1.00) |
8q gain | 242 (42%) | 337 |
0.0207 (1.00) |
0.00064 (0.664) |
0.0807 (1.00) |
0.141 (1.00) |
0.259 (1.00) |
0.448 (1.00) |
0.319 (1.00) |
0.267 (1.00) |
0.0299 (1.00) |
0.0853 (1.00) |
0.56 (1.00) |
0.863 (1.00) |
0.031 (1.00) |
0.686 (1.00) |
9p gain | 92 (16%) | 487 |
0.113 (1.00) |
0.423 (1.00) |
0.237 (1.00) |
0.867 (1.00) |
0.00273 (1.00) |
0.00847 (1.00) |
0.4 (1.00) |
0.726 (1.00) |
0.692 (1.00) |
0.412 (1.00) |
0.186 (1.00) |
0.188 (1.00) |
0.624 (1.00) |
0.608 (1.00) |
9q gain | 45 (8%) | 534 |
0.252 (1.00) |
0.309 (1.00) |
0.0926 (1.00) |
0.533 (1.00) |
0.138 (1.00) |
0.224 (1.00) |
0.579 (1.00) |
0.0268 (1.00) |
0.483 (1.00) |
0.0914 (1.00) |
0.496 (1.00) |
0.752 (1.00) |
0.455 (1.00) |
|
10q gain | 111 (19%) | 468 |
0.00423 (1.00) |
0.00911 (1.00) |
0.24 (1.00) |
0.117 (1.00) |
0.00393 (1.00) |
0.0935 (1.00) |
0.768 (1.00) |
0.0615 (1.00) |
0.105 (1.00) |
0.22 (1.00) |
0.731 (1.00) |
0.247 (1.00) |
0.646 (1.00) |
0.659 (1.00) |
11p gain | 77 (13%) | 502 |
0.713 (1.00) |
0.1 (1.00) |
0.64 (1.00) |
0.468 (1.00) |
0.136 (1.00) |
0.0138 (1.00) |
0.0278 (1.00) |
0.0262 (1.00) |
0.0581 (1.00) |
0.0348 (1.00) |
0.559 (1.00) |
0.838 (1.00) |
1 (1.00) |
|
11q gain | 115 (20%) | 464 |
0.394 (1.00) |
0.251 (1.00) |
0.883 (1.00) |
0.181 (1.00) |
0.0044 (1.00) |
0.00187 (1.00) |
0.206 (1.00) |
0.00079 (0.817) |
0.303 (1.00) |
0.156 (1.00) |
0.409 (1.00) |
0.779 (1.00) |
0.323 (1.00) |
0.106 (1.00) |
14q gain | 59 (10%) | 520 |
0.139 (1.00) |
0.191 (1.00) |
0.405 (1.00) |
0.699 (1.00) |
0.411 (1.00) |
0.741 (1.00) |
0.33 (1.00) |
0.172 (1.00) |
0.503 (1.00) |
0.568 (1.00) |
0.656 (1.00) |
0.63 (1.00) |
1 (1.00) |
|
15q gain | 40 (7%) | 539 |
0.848 (1.00) |
0.479 (1.00) |
0.0876 (1.00) |
0.758 (1.00) |
0.0976 (1.00) |
0.604 (1.00) |
0.114 (1.00) |
0.109 (1.00) |
0.738 (1.00) |
0.931 (1.00) |
0.314 (1.00) |
0.203 (1.00) |
1 (1.00) |
|
16p gain | 59 (10%) | 520 |
0.00232 (1.00) |
0.00505 (1.00) |
0.405 (1.00) |
0.175 (1.00) |
0.0296 (1.00) |
0.0176 (1.00) |
0.348 (1.00) |
0.0347 (1.00) |
0.65 (1.00) |
0.799 (1.00) |
0.122 (1.00) |
0.08 (1.00) |
0.481 (1.00) |
|
16q gain | 31 (5%) | 548 |
0.00095 (0.979) |
0.0438 (1.00) |
0.162 (1.00) |
0.221 (1.00) |
0.268 (1.00) |
0.00319 (1.00) |
0.455 (1.00) |
0.026 (1.00) |
1 (1.00) |
0.364 (1.00) |
0.00073 (0.756) |
0.105 (1.00) |
1 (1.00) |
|
17p gain | 22 (4%) | 557 |
0.431 (1.00) |
0.113 (1.00) |
0.0552 (1.00) |
0.0525 (1.00) |
0.154 (1.00) |
0.231 (1.00) |
0.499 (1.00) |
0.406 (1.00) |
0.211 (1.00) |
0.00371 (1.00) |
0.174 (1.00) |
0.838 (1.00) |
||
17q gain | 47 (8%) | 532 |
0.423 (1.00) |
0.0378 (1.00) |
0.758 (1.00) |
0.0369 (1.00) |
0.522 (1.00) |
0.389 (1.00) |
0.588 (1.00) |
0.373 (1.00) |
0.902 (1.00) |
0.0227 (1.00) |
0.823 (1.00) |
0.879 (1.00) |
1 (1.00) |
|
18p gain | 120 (21%) | 459 |
0.184 (1.00) |
0.0984 (1.00) |
0.871 (1.00) |
0.392 (1.00) |
0.00153 (1.00) |
0.0003 (0.316) |
0.0238 (1.00) |
0.111 (1.00) |
0.812 (1.00) |
0.69 (1.00) |
0.35 (1.00) |
0.234 (1.00) |
0.646 (1.00) |
0.812 (1.00) |
18q gain | 72 (12%) | 507 |
0.644 (1.00) |
0.166 (1.00) |
0.231 (1.00) |
0.39 (1.00) |
0.0236 (1.00) |
0.0244 (1.00) |
0.514 (1.00) |
0.397 (1.00) |
0.484 (1.00) |
0.271 (1.00) |
0.107 (1.00) |
0.194 (1.00) |
1 (1.00) |
1 (1.00) |
21q gain | 109 (19%) | 470 |
0.291 (1.00) |
0.879 (1.00) |
0.962 (1.00) |
0.582 (1.00) |
0.00169 (1.00) |
0.0163 (1.00) |
0.456 (1.00) |
0.393 (1.00) |
0.335 (1.00) |
0.843 (1.00) |
0.0229 (1.00) |
0.044 (1.00) |
1 (1.00) |
|
22q gain | 24 (4%) | 555 |
0.367 (1.00) |
0.6 (1.00) |
0.932 (1.00) |
0.605 (1.00) |
0.368 (1.00) |
0.17 (1.00) |
0.392 (1.00) |
0.375 (1.00) |
0.563 (1.00) |
0.608 (1.00) |
0.0968 (1.00) |
0.0815 (1.00) |
0.571 (1.00) |
0.382 (1.00) |
xq gain | 106 (18%) | 473 |
0.482 (1.00) |
0.828 (1.00) |
0.843 (1.00) |
0.267 (1.00) |
0.00048 (0.501) |
0.933 (1.00) |
0.311 (1.00) |
0.837 (1.00) |
0.762 (1.00) |
0.93 (1.00) |
0.474 (1.00) |
0.3 (1.00) |
1 (1.00) |
0.908 (1.00) |
1p loss | 65 (11%) | 514 |
0.0322 (1.00) |
0.00033 (0.346) |
0.465 (1.00) |
0.195 (1.00) |
0.467 (1.00) |
0.291 (1.00) |
0.0207 (1.00) |
0.211 (1.00) |
0.632 (1.00) |
0.508 (1.00) |
0.446 (1.00) |
0.309 (1.00) |
1 (1.00) |
|
1q loss | 43 (7%) | 536 |
0.118 (1.00) |
0.0144 (1.00) |
0.0581 (1.00) |
0.601 (1.00) |
0.69 (1.00) |
0.383 (1.00) |
0.222 (1.00) |
0.619 (1.00) |
0.466 (1.00) |
1 (1.00) |
0.969 (1.00) |
0.932 (1.00) |
||
2p loss | 53 (9%) | 526 |
0.931 (1.00) |
0.0238 (1.00) |
0.617 (1.00) |
0.489 (1.00) |
0.578 (1.00) |
0.775 (1.00) |
0.484 (1.00) |
0.894 (1.00) |
0.335 (1.00) |
0.816 (1.00) |
0.722 (1.00) |
0.402 (1.00) |
0.481 (1.00) |
|
2q loss | 59 (10%) | 520 |
0.919 (1.00) |
0.27 (1.00) |
0.697 (1.00) |
0.151 (1.00) |
0.855 (1.00) |
0.682 (1.00) |
0.89 (1.00) |
0.938 (1.00) |
0.499 (1.00) |
0.794 (1.00) |
0.556 (1.00) |
0.23 (1.00) |
0.481 (1.00) |
|
3p loss | 95 (16%) | 484 |
0.0228 (1.00) |
0.00084 (0.867) |
0.818 (1.00) |
0.00584 (1.00) |
0.00055 (0.572) |
0.00276 (1.00) |
0.65 (1.00) |
0.267 (1.00) |
0.0621 (1.00) |
0.00559 (1.00) |
0.122 (1.00) |
0.0912 (1.00) |
1 (1.00) |
0.124 (1.00) |
3q loss | 43 (7%) | 536 |
0.0134 (1.00) |
0.0395 (1.00) |
0.286 (1.00) |
0.0576 (1.00) |
0.0296 (1.00) |
0.00292 (1.00) |
0.933 (1.00) |
0.361 (1.00) |
0.231 (1.00) |
0.0917 (1.00) |
0.305 (1.00) |
0.00112 (1.00) |
0.594 (1.00) |
0.0333 (1.00) |
4p loss | 316 (55%) | 263 |
0.366 (1.00) |
0.0232 (1.00) |
0.282 (1.00) |
0.615 (1.00) |
0.00416 (1.00) |
0.482 (1.00) |
0.15 (1.00) |
0.132 (1.00) |
0.426 (1.00) |
0.441 (1.00) |
0.12 (1.00) |
0.197 (1.00) |
1 (1.00) |
0.624 (1.00) |
4q loss | 362 (63%) | 217 |
0.208 (1.00) |
0.0819 (1.00) |
0.5 (1.00) |
0.716 (1.00) |
0.00127 (1.00) |
0.561 (1.00) |
0.121 (1.00) |
0.0179 (1.00) |
0.269 (1.00) |
0.35 (1.00) |
0.214 (1.00) |
0.181 (1.00) |
1 (1.00) |
0.368 (1.00) |
6p loss | 165 (28%) | 414 |
0.97 (1.00) |
0.0201 (1.00) |
0.45 (1.00) |
0.507 (1.00) |
0.147 (1.00) |
0.12 (1.00) |
0.78 (1.00) |
0.849 (1.00) |
0.41 (1.00) |
0.043 (1.00) |
0.48 (1.00) |
0.102 (1.00) |
0.571 (1.00) |
0.574 (1.00) |
6q loss | 242 (42%) | 337 |
0.962 (1.00) |
0.0762 (1.00) |
0.433 (1.00) |
0.0972 (1.00) |
0.0341 (1.00) |
0.0712 (1.00) |
0.624 (1.00) |
0.658 (1.00) |
0.019 (1.00) |
0.0207 (1.00) |
0.792 (1.00) |
0.571 (1.00) |
0.594 (1.00) |
0.902 (1.00) |
7p loss | 121 (21%) | 458 |
0.991 (1.00) |
0.404 (1.00) |
0.479 (1.00) |
0.699 (1.00) |
0.111 (1.00) |
0.149 (1.00) |
0.541 (1.00) |
0.328 (1.00) |
0.775 (1.00) |
0.712 (1.00) |
0.538 (1.00) |
0.8 (1.00) |
0.594 (1.00) |
0.202 (1.00) |
7q loss | 81 (14%) | 498 |
0.336 (1.00) |
0.089 (1.00) |
0.347 (1.00) |
0.3 (1.00) |
0.737 (1.00) |
0.11 (1.00) |
0.82 (1.00) |
0.0696 (1.00) |
0.478 (1.00) |
0.312 (1.00) |
0.124 (1.00) |
0.82 (1.00) |
1 (1.00) |
0.338 (1.00) |
8p loss | 277 (48%) | 302 |
0.741 (1.00) |
0.89 (1.00) |
0.242 (1.00) |
0.946 (1.00) |
0.00241 (1.00) |
0.11 (1.00) |
0.119 (1.00) |
0.297 (1.00) |
0.481 (1.00) |
0.703 (1.00) |
0.701 (1.00) |
0.037 (1.00) |
1 (1.00) |
0.94 (1.00) |
8q loss | 90 (16%) | 489 |
0.00762 (1.00) |
0.00521 (1.00) |
0.519 (1.00) |
0.263 (1.00) |
0.00106 (1.00) |
0.0346 (1.00) |
0.0217 (1.00) |
0.234 (1.00) |
0.00095 (0.979) |
0.0288 (1.00) |
0.663 (1.00) |
0.124 (1.00) |
1 (1.00) |
0.901 (1.00) |
9p loss | 262 (45%) | 317 |
0.00323 (1.00) |
0.00598 (1.00) |
0.51 (1.00) |
0.183 (1.00) |
0.0162 (1.00) |
0.0691 (1.00) |
0.793 (1.00) |
0.546 (1.00) |
0.899 (1.00) |
0.107 (1.00) |
0.0546 (1.00) |
0.254 (1.00) |
0.391 (1.00) |
0.154 (1.00) |
10p loss | 97 (17%) | 482 |
0.223 (1.00) |
0.963 (1.00) |
0.221 (1.00) |
0.336 (1.00) |
0.643 (1.00) |
0.232 (1.00) |
0.594 (1.00) |
0.0878 (1.00) |
0.652 (1.00) |
0.555 (1.00) |
0.359 (1.00) |
0.833 (1.00) |
1 (1.00) |
0.221 (1.00) |
10q loss | 124 (21%) | 455 |
0.938 (1.00) |
0.825 (1.00) |
0.00449 (1.00) |
0.296 (1.00) |
0.0229 (1.00) |
0.00188 (1.00) |
0.302 (1.00) |
0.407 (1.00) |
0.773 (1.00) |
0.741 (1.00) |
0.693 (1.00) |
0.371 (1.00) |
0.381 (1.00) |
0.695 (1.00) |
11p loss | 198 (34%) | 381 |
0.239 (1.00) |
0.0109 (1.00) |
0.545 (1.00) |
0.31 (1.00) |
0.199 (1.00) |
0.0367 (1.00) |
0.1 (1.00) |
0.611 (1.00) |
0.0408 (1.00) |
0.11 (1.00) |
0.472 (1.00) |
0.143 (1.00) |
0.323 (1.00) |
0.802 (1.00) |
11q loss | 148 (26%) | 431 |
0.296 (1.00) |
0.902 (1.00) |
0.211 (1.00) |
0.561 (1.00) |
0.00946 (1.00) |
0.07 (1.00) |
0.423 (1.00) |
0.767 (1.00) |
0.269 (1.00) |
0.801 (1.00) |
0.495 (1.00) |
0.176 (1.00) |
0.594 (1.00) |
0.384 (1.00) |
12p loss | 79 (14%) | 500 |
0.00262 (1.00) |
0.011 (1.00) |
0.657 (1.00) |
0.00649 (1.00) |
0.00104 (1.00) |
0.254 (1.00) |
0.87 (1.00) |
0.152 (1.00) |
0.315 (1.00) |
0.201 (1.00) |
0.00955 (1.00) |
0.00618 (1.00) |
0.293 (1.00) |
0.725 (1.00) |
12q loss | 105 (18%) | 474 |
0.0826 (1.00) |
0.0831 (1.00) |
0.728 (1.00) |
0.17 (1.00) |
0.0223 (1.00) |
0.223 (1.00) |
0.266 (1.00) |
0.558 (1.00) |
0.173 (1.00) |
0.149 (1.00) |
0.0259 (1.00) |
0.0304 (1.00) |
0.135 (1.00) |
0.0412 (1.00) |
16p loss | 334 (58%) | 245 |
0.38 (1.00) |
0.846 (1.00) |
0.0402 (1.00) |
0.351 (1.00) |
0.217 (1.00) |
0.115 (1.00) |
0.766 (1.00) |
0.227 (1.00) |
0.0397 (1.00) |
0.246 (1.00) |
0.0483 (1.00) |
0.0683 (1.00) |
0.675 (1.00) |
0.368 (1.00) |
16q loss | 413 (71%) | 166 |
0.579 (1.00) |
0.87 (1.00) |
0.00285 (1.00) |
0.0795 (1.00) |
0.0282 (1.00) |
0.0645 (1.00) |
0.907 (1.00) |
0.308 (1.00) |
0.196 (1.00) |
0.37 (1.00) |
0.0541 (1.00) |
0.129 (1.00) |
0.624 (1.00) |
0.606 (1.00) |
17p loss | 478 (83%) | 101 |
0.337 (1.00) |
0.228 (1.00) |
0.136 (1.00) |
0.205 (1.00) |
0.592 (1.00) |
0.249 (1.00) |
0.554 (1.00) |
0.189 (1.00) |
0.102 (1.00) |
0.0571 (1.00) |
0.474 (1.00) |
0.476 (1.00) |
1 (1.00) |
|
17q loss | 383 (66%) | 196 |
0.0844 (1.00) |
0.0283 (1.00) |
0.0149 (1.00) |
0.0116 (1.00) |
0.944 (1.00) |
0.557 (1.00) |
0.57 (1.00) |
0.294 (1.00) |
0.534 (1.00) |
0.097 (1.00) |
0.0776 (1.00) |
0.713 (1.00) |
0.624 (1.00) |
0.278 (1.00) |
18p loss | 235 (41%) | 344 |
0.411 (1.00) |
0.952 (1.00) |
0.472 (1.00) |
0.0214 (1.00) |
0.546 (1.00) |
0.00218 (1.00) |
0.313 (1.00) |
0.00672 (1.00) |
0.0238 (1.00) |
0.114 (1.00) |
0.838 (1.00) |
0.538 (1.00) |
0.666 (1.00) |
0.579 (1.00) |
18q loss | 293 (51%) | 286 |
0.343 (1.00) |
0.972 (1.00) |
0.296 (1.00) |
0.957 (1.00) |
0.854 (1.00) |
0.104 (1.00) |
0.713 (1.00) |
0.0354 (1.00) |
0.0114 (1.00) |
0.0912 (1.00) |
0.978 (1.00) |
0.779 (1.00) |
0.67 (1.00) |
0.247 (1.00) |
19p loss | 185 (32%) | 394 |
0.978 (1.00) |
0.454 (1.00) |
0.328 (1.00) |
0.0437 (1.00) |
0.00498 (1.00) |
0.0191 (1.00) |
0.00972 (1.00) |
0.887 (1.00) |
0.667 (1.00) |
0.313 (1.00) |
0.675 (1.00) |
0.119 (1.00) |
0.0115 (1.00) |
0.126 (1.00) |
19q loss | 178 (31%) | 401 |
0.692 (1.00) |
0.246 (1.00) |
0.25 (1.00) |
0.015 (1.00) |
0.00448 (1.00) |
0.0728 (1.00) |
0.0602 (1.00) |
0.678 (1.00) |
0.925 (1.00) |
0.719 (1.00) |
0.3 (1.00) |
0.052 (1.00) |
0.00535 (1.00) |
0.427 (1.00) |
20p loss | 50 (9%) | 529 |
0.353 (1.00) |
0.722 (1.00) |
0.222 (1.00) |
0.62 (1.00) |
0.111 (1.00) |
0.469 (1.00) |
0.103 (1.00) |
0.2 (1.00) |
0.0733 (1.00) |
0.00338 (1.00) |
0.00079 (0.817) |
0.27 (1.00) |
0.481 (1.00) |
|
20q loss | 32 (6%) | 547 |
0.115 (1.00) |
0.5 (1.00) |
0.0367 (1.00) |
0.507 (1.00) |
0.442 (1.00) |
0.638 (1.00) |
0.0486 (1.00) |
0.0972 (1.00) |
0.133 (1.00) |
0.0136 (1.00) |
0.136 (1.00) |
0.378 (1.00) |
0.481 (1.00) |
|
21q loss | 199 (34%) | 380 |
0.818 (1.00) |
0.0519 (1.00) |
0.386 (1.00) |
0.185 (1.00) |
0.49 (1.00) |
0.141 (1.00) |
0.652 (1.00) |
0.436 (1.00) |
0.583 (1.00) |
0.408 (1.00) |
0.689 (1.00) |
0.733 (1.00) |
0.162 (1.00) |
0.581 (1.00) |
xq loss | 277 (48%) | 302 |
0.0528 (1.00) |
0.186 (1.00) |
0.253 (1.00) |
0.909 (1.00) |
0.00135 (1.00) |
0.162 (1.00) |
0.328 (1.00) |
0.0468 (1.00) |
0.508 (1.00) |
0.898 (1.00) |
0.745 (1.00) |
0.415 (1.00) |
1 (1.00) |
0.289 (1.00) |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 171 | 206 | 202 |
1Q GAIN MUTATED | 56 | 55 | 110 |
1Q GAIN WILD-TYPE | 115 | 151 | 92 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 216 | 126 |
2P GAIN MUTATED | 93 | 45 | 36 |
2P GAIN WILD-TYPE | 122 | 171 | 90 |
P value = 2e-05 (Fisher's exact test), Q value = 0.021
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 310 | 158 | 89 |
2P GAIN MUTATED | 77 | 48 | 49 |
2P GAIN WILD-TYPE | 233 | 110 | 40 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 171 | 206 | 202 |
2P GAIN MUTATED | 37 | 47 | 102 |
2P GAIN WILD-TYPE | 134 | 159 | 100 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 172 | 175 | 221 |
2P GAIN MUTATED | 83 | 44 | 52 |
2P GAIN WILD-TYPE | 89 | 131 | 169 |
P value = 0.00016 (Fisher's exact test), Q value = 0.17
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 100 | 67 | 91 |
2P GAIN MUTATED | 31 | 12 | 45 |
2P GAIN WILD-TYPE | 69 | 55 | 46 |
P value = 7e-05 (Fisher's exact test), Q value = 0.075
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 310 | 158 | 89 |
2Q GAIN MUTATED | 70 | 36 | 41 |
2Q GAIN WILD-TYPE | 240 | 122 | 48 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 171 | 206 | 202 |
2Q GAIN MUTATED | 31 | 40 | 84 |
2Q GAIN WILD-TYPE | 140 | 166 | 118 |
P value = 0.00023 (Fisher's exact test), Q value = 0.24
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 172 | 175 | 221 |
2Q GAIN MUTATED | 66 | 36 | 49 |
2Q GAIN WILD-TYPE | 106 | 139 | 172 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 171 | 206 | 202 |
3Q GAIN MUTATED | 58 | 90 | 127 |
3Q GAIN WILD-TYPE | 113 | 116 | 75 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 171 | 206 | 202 |
6P GAIN MUTATED | 29 | 56 | 85 |
6P GAIN WILD-TYPE | 142 | 150 | 117 |
P value = 9e-05 (Fisher's exact test), Q value = 0.096
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 172 | 175 | 221 |
6P GAIN MUTATED | 72 | 39 | 55 |
6P GAIN WILD-TYPE | 100 | 136 | 166 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 171 | 206 | 202 |
6Q GAIN MUTATED | 12 | 30 | 55 |
6Q GAIN WILD-TYPE | 159 | 176 | 147 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 172 | 175 | 221 |
6Q GAIN MUTATED | 48 | 16 | 32 |
6Q GAIN WILD-TYPE | 124 | 159 | 189 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 171 | 206 | 202 |
7P GAIN MUTATED | 43 | 44 | 94 |
7P GAIN WILD-TYPE | 128 | 162 | 108 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 171 | 206 | 202 |
7Q GAIN MUTATED | 46 | 57 | 100 |
7Q GAIN WILD-TYPE | 125 | 149 | 102 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 171 | 206 | 202 |
10P GAIN MUTATED | 41 | 45 | 102 |
10P GAIN WILD-TYPE | 130 | 161 | 100 |
P value = 0.00021 (Fisher's exact test), Q value = 0.22
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 172 | 175 | 221 |
10P GAIN MUTATED | 77 | 44 | 63 |
10P GAIN WILD-TYPE | 95 | 131 | 158 |
P value = 1e-04 (Fisher's exact test), Q value = 0.11
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 216 | 126 |
12P GAIN MUTATED | 118 | 75 | 49 |
12P GAIN WILD-TYPE | 97 | 141 | 77 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 171 | 206 | 202 |
12P GAIN MUTATED | 54 | 68 | 133 |
12P GAIN WILD-TYPE | 117 | 138 | 69 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 172 | 175 | 221 |
12P GAIN MUTATED | 104 | 71 | 74 |
12P GAIN WILD-TYPE | 68 | 104 | 147 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 171 | 206 | 202 |
12Q GAIN MUTATED | 40 | 38 | 99 |
12Q GAIN WILD-TYPE | 131 | 168 | 103 |
P value = 2e-05 (Fisher's exact test), Q value = 0.021
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 172 | 175 | 221 |
12Q GAIN MUTATED | 78 | 43 | 54 |
12Q GAIN WILD-TYPE | 94 | 132 | 167 |
P value = 6e-05 (Fisher's exact test), Q value = 0.064
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 171 | 206 | 202 |
13Q GAIN MUTATED | 22 | 7 | 31 |
13Q GAIN WILD-TYPE | 149 | 199 | 171 |
P value = 3e-05 (Fisher's exact test), Q value = 0.032
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 172 | 175 | 221 |
13Q GAIN MUTATED | 31 | 20 | 8 |
13Q GAIN WILD-TYPE | 141 | 155 | 213 |
P value = 2e-05 (Fisher's exact test), Q value = 0.021
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 171 | 206 | 202 |
19P GAIN MUTATED | 33 | 55 | 83 |
19P GAIN WILD-TYPE | 138 | 151 | 119 |
P value = 6e-05 (Fisher's exact test), Q value = 0.064
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 171 | 206 | 202 |
19Q GAIN MUTATED | 33 | 49 | 79 |
19Q GAIN WILD-TYPE | 138 | 157 | 123 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 171 | 206 | 202 |
20P GAIN MUTATED | 66 | 79 | 144 |
20P GAIN WILD-TYPE | 105 | 127 | 58 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 172 | 175 | 221 |
20P GAIN MUTATED | 117 | 79 | 86 |
20P GAIN WILD-TYPE | 55 | 96 | 135 |
P value = 3e-05 (Fisher's exact test), Q value = 0.032
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 215 | 216 | 126 |
20Q GAIN MUTATED | 143 | 95 | 76 |
20Q GAIN WILD-TYPE | 72 | 121 | 50 |
P value = 8e-05 (Fisher's exact test), Q value = 0.085
nPatients | CLUS_1 | CLUS_10 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 | CLUS_9 |
---|---|---|---|---|---|---|---|---|---|---|
ALL | 85 | 57 | 58 | 82 | 34 | 75 | 34 | 36 | 52 | 42 |
20Q GAIN MUTATED | 35 | 30 | 35 | 40 | 24 | 41 | 26 | 21 | 42 | 19 |
20Q GAIN WILD-TYPE | 50 | 27 | 23 | 42 | 10 | 34 | 8 | 15 | 10 | 23 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 171 | 206 | 202 |
20Q GAIN MUTATED | 69 | 98 | 161 |
20Q GAIN WILD-TYPE | 102 | 108 | 41 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 172 | 175 | 221 |
20Q GAIN MUTATED | 132 | 87 | 101 |
20Q GAIN WILD-TYPE | 40 | 88 | 120 |
P value = 0.00018 (Fisher's exact test), Q value = 0.19
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 100 | 67 | 91 |
5P LOSS MUTATED | 21 | 10 | 39 |
5P LOSS WILD-TYPE | 79 | 57 | 52 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 172 | 175 | 221 |
5Q LOSS MUTATED | 96 | 51 | 72 |
5Q LOSS WILD-TYPE | 76 | 124 | 149 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 171 | 206 | 202 |
9Q LOSS MUTATED | 81 | 68 | 137 |
9Q LOSS WILD-TYPE | 90 | 138 | 65 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 172 | 175 | 221 |
13Q LOSS MUTATED | 89 | 72 | 144 |
13Q LOSS WILD-TYPE | 83 | 103 | 77 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 171 | 206 | 202 |
14Q LOSS MUTATED | 52 | 58 | 105 |
14Q LOSS WILD-TYPE | 119 | 148 | 97 |
P value = 8e-05 (Fisher's exact test), Q value = 0.085
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 159 | 164 | 232 |
15Q LOSS MUTATED | 62 | 70 | 138 |
15Q LOSS WILD-TYPE | 97 | 94 | 94 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 171 | 206 | 202 |
15Q LOSS MUTATED | 65 | 74 | 141 |
15Q LOSS WILD-TYPE | 106 | 132 | 61 |
P value = 1e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 172 | 175 | 221 |
15Q LOSS MUTATED | 114 | 69 | 94 |
15Q LOSS WILD-TYPE | 58 | 106 | 127 |
P value = 0.00015 (Fisher's exact test), Q value = 0.16
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 171 | 206 | 202 |
22Q LOSS MUTATED | 120 | 139 | 171 |
22Q LOSS WILD-TYPE | 51 | 67 | 31 |
-
Copy number data file = transformed.cor.cli.txt
-
Molecular subtypes file = OV-TP.transferedmergedcluster.txt
-
Number of patients = 579
-
Number of significantly arm-level cnvs = 80
-
Number of molecular subtypes = 14
-
Exclude genes that fewer than K tumors have mutations, K = 3
For binary or multi-class clinical features (nominal or ordinal), two-tailed Fisher's exact tests (Fisher 1922) were used to estimate the P values using the 'fisher.test' function in R
For multiple hypothesis correction, Q value is the False Discovery Rate (FDR) analogue of the P value (Benjamini and Hochberg 1995), defined as the minimum FDR at which the test may be called significant. We used the 'Benjamini and Hochberg' method of 'p.adjust' function in R to convert P values into Q values.
In addition to the links below, the full results of the analysis summarized in this report can also be downloaded programmatically using firehose_get, or interactively from either the Broad GDAC website or TCGA Data Coordination Center Portal.