This pipeline computes the correlation between significant arm-level copy number variations (cnvs) and subtypes.
Testing the association between copy number variation 45 arm-level results and 10 molecular subtypes across 494 patients, 132 significant findings detected with Q value < 0.25.
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1q gain cnv correlated to 'CN_CNMF'.
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4p gain cnv correlated to 'CN_CNMF'.
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4q gain cnv correlated to 'CN_CNMF'.
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5p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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5q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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7p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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7q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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11q gain cnv correlated to 'CN_CNMF'.
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12p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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12q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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13q gain cnv correlated to 'CN_CNMF'.
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14q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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16p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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16q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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17p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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17q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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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 'CN_CNMF' and 'METHLYATION_CNMF'.
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1p loss cnv correlated to 'CN_CNMF'.
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2p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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2q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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3q loss cnv correlated to 'CN_CNMF'.
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8p loss cnv correlated to 'CN_CNMF'.
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8q loss cnv correlated to 'CN_CNMF'.
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9p loss cnv correlated to 'CN_CNMF'.
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9q loss cnv correlated to 'CN_CNMF'.
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10p loss cnv correlated to 'CN_CNMF'.
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10q loss cnv correlated to 'CN_CNMF'.
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11p loss cnv correlated to 'CN_CNMF'.
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11q loss cnv correlated to 'CN_CNMF' and 'MIRSEQ_CNMF'.
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15q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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18p loss cnv correlated to 'CN_CNMF'.
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18q loss cnv correlated to 'CN_CNMF'.
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21q loss cnv correlated to 'CN_CNMF'.
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22q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
Molecular subtypes |
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 | |
7q gain | 0 (0%) | 475 |
1.95e-23 (8.15e-21) |
2.06e-05 (0.00732) |
0.805 (1.00) |
0.00206 (0.543) |
7.11e-05 (0.024) |
1.23e-05 (0.00451) |
0.000332 (0.102) |
2.25e-05 (0.00796) |
7.82e-05 (0.0264) |
1.63e-05 (0.00595) |
12p gain | 0 (0%) | 483 |
1.08e-12 (4.45e-10) |
4.68e-06 (0.00176) |
1 (1.00) |
0.0281 (1.00) |
2.32e-05 (0.0082) |
4.9e-06 (0.00184) |
3.75e-05 (0.0131) |
1.29e-05 (0.00474) |
0.000147 (0.0484) |
9.1e-06 (0.00338) |
12q gain | 0 (0%) | 482 |
1.34e-12 (5.47e-10) |
1.51e-06 (0.000589) |
1 (1.00) |
0.0281 (1.00) |
7.58e-06 (0.00283) |
1.57e-06 (0.000607) |
1.21e-05 (0.00446) |
3.57e-06 (0.00136) |
5.02e-05 (0.0173) |
2.43e-06 (0.000931) |
16p gain | 0 (0%) | 482 |
5.86e-14 (2.42e-11) |
1.21e-05 (0.00446) |
0.795 (1.00) |
0.0363 (1.00) |
0.000225 (0.071) |
4.56e-05 (0.0158) |
0.000181 (0.0591) |
4.67e-05 (0.0162) |
0.000388 (0.117) |
2.42e-05 (0.00851) |
17p gain | 0 (0%) | 482 |
1.99e-09 (8.02e-07) |
1.51e-06 (0.000589) |
0.773 (1.00) |
0.0122 (1.00) |
7.58e-06 (0.00283) |
1.57e-06 (0.000607) |
1.21e-05 (0.00446) |
3.57e-06 (0.00136) |
5.02e-05 (0.0173) |
2.43e-06 (0.000931) |
17q gain | 0 (0%) | 481 |
3.8e-09 (1.53e-06) |
3.34e-07 (0.000132) |
0.795 (1.00) |
0.0193 (1.00) |
2.22e-06 (0.000855) |
3.35e-07 (0.000132) |
3.86e-06 (0.00145) |
9.76e-07 (0.000383) |
1.69e-05 (0.00617) |
6.38e-07 (0.000251) |
2p loss | 0 (0%) | 486 |
5.2e-09 (2.08e-06) |
0.000139 (0.0461) |
1 (1.00) |
0.079 (1.00) |
0.000645 (0.189) |
0.000218 (0.0697) |
6.43e-05 (0.022) |
1.99e-05 (0.00709) |
0.000242 (0.0759) |
1.75e-05 (0.00635) |
22q loss | 0 (0%) | 429 |
4.98e-57 (2.08e-54) |
4.44e-05 (0.0155) |
0.0578 (1.00) |
0.244 (1.00) |
6.84e-11 (2.77e-08) |
8.07e-11 (3.26e-08) |
3.24e-05 (0.0114) |
5.3e-06 (0.00198) |
1.56e-07 (6.17e-05) |
3.09e-06 (0.00118) |
5q gain | 0 (0%) | 480 |
2.84e-18 (1.17e-15) |
4.86e-05 (0.0168) |
1 (1.00) |
0.0281 (1.00) |
0.000231 (0.0729) |
8.87e-05 (0.0296) |
0.000436 (0.131) |
2.79e-05 (0.00979) |
0.00155 (0.422) |
2.13e-05 (0.00756) |
7p gain | 0 (0%) | 477 |
1.76e-22 (7.34e-20) |
0.000149 (0.0488) |
0.835 (1.00) |
0.0106 (1.00) |
0.000536 (0.159) |
0.000114 (0.038) |
0.00261 (0.674) |
0.000255 (0.0794) |
0.000527 (0.157) |
0.000184 (0.06) |
2q loss | 0 (0%) | 487 |
3.94e-09 (1.58e-06) |
0.000343 (0.105) |
0.839 (1.00) |
0.0521 (1.00) |
0.00153 (0.419) |
0.000675 (0.196) |
0.000219 (0.0697) |
7.85e-05 (0.0264) |
0.000758 (0.218) |
7.02e-05 (0.0239) |
15q loss | 0 (0%) | 487 |
0.000653 (0.19) |
0.000343 (0.105) |
0.457 (1.00) |
0.25 (1.00) |
0.00153 (0.419) |
0.000675 (0.196) |
0.000219 (0.0697) |
7.85e-05 (0.0264) |
0.000758 (0.218) |
7.02e-05 (0.0239) |
14q gain | 0 (0%) | 486 |
5.2e-09 (2.08e-06) |
0.000139 (0.0461) |
1 (1.00) |
0.25 (1.00) |
0.000645 (0.189) |
0.000218 (0.0697) |
0.00106 (0.303) |
0.000573 (0.17) |
0.00344 (0.864) |
0.000587 (0.173) |
16q gain | 0 (0%) | 484 |
6.03e-13 (2.48e-10) |
6.6e-05 (0.0225) |
1 (1.00) |
0.126 (1.00) |
0.00181 (0.491) |
0.000415 (0.125) |
0.0014 (0.388) |
0.000637 (0.187) |
0.00278 (0.712) |
0.0005 (0.15) |
5p gain | 0 (0%) | 477 |
7.68e-20 (3.19e-17) |
0.000366 (0.111) |
0.835 (1.00) |
0.107 (1.00) |
0.00286 (0.729) |
0.000995 (0.285) |
0.00357 (0.893) |
0.000204 (0.066) |
0.00688 (1.00) |
0.000131 (0.0435) |
20p gain | 0 (0%) | 485 |
1.17e-11 (4.77e-09) |
0.000251 (0.0787) |
1 (1.00) |
0.079 (1.00) |
0.00467 (1.00) |
0.00183 (0.493) |
0.00382 (0.95) |
0.00188 (0.503) |
0.00566 (1.00) |
0.00149 (0.412) |
20q gain | 0 (0%) | 485 |
1.17e-11 (4.77e-09) |
0.000251 (0.0787) |
1 (1.00) |
0.079 (1.00) |
0.00467 (1.00) |
0.00183 (0.493) |
0.00382 (0.95) |
0.00188 (0.503) |
0.00566 (1.00) |
0.00149 (0.412) |
11q loss | 0 (0%) | 485 |
3.28e-06 (0.00125) |
0.0106 (1.00) |
0.321 (1.00) |
0.794 (1.00) |
0.0185 (1.00) |
0.017 (1.00) |
0.000352 (0.107) |
0.00336 (0.846) |
0.00122 (0.34) |
0.00275 (0.706) |
1q gain | 0 (0%) | 473 |
3.68e-06 (0.00139) |
0.0848 (1.00) |
0.00319 (0.808) |
0.0931 (1.00) |
0.0107 (1.00) |
0.00403 (0.99) |
0.233 (1.00) |
0.203 (1.00) |
0.185 (1.00) |
0.0917 (1.00) |
4p gain | 0 (0%) | 490 |
1.89e-05 (0.00685) |
0.0149 (1.00) |
0.0444 (1.00) |
0.0219 (1.00) |
0.0755 (1.00) |
0.0676 (1.00) |
0.129 (1.00) |
0.0942 (1.00) |
||
4q gain | 0 (0%) | 490 |
1.89e-05 (0.00685) |
0.0149 (1.00) |
0.0444 (1.00) |
0.0219 (1.00) |
0.0755 (1.00) |
0.0676 (1.00) |
0.129 (1.00) |
0.0942 (1.00) |
||
11q gain | 0 (0%) | 490 |
0.000207 (0.0668) |
0.0149 (1.00) |
0.0444 (1.00) |
0.0219 (1.00) |
0.00833 (1.00) |
0.00467 (1.00) |
0.0227 (1.00) |
0.00439 (1.00) |
||
13q gain | 0 (0%) | 491 |
0.0003 (0.0929) |
0.0585 (1.00) |
0.0985 (1.00) |
0.0788 (1.00) |
0.207 (1.00) |
0.355 (1.00) |
0.323 (1.00) |
0.27 (1.00) |
||
19p gain | 0 (0%) | 490 |
1.89e-05 (0.00685) |
0.0149 (1.00) |
0.0444 (1.00) |
0.0219 (1.00) |
0.00833 (1.00) |
0.00467 (1.00) |
0.0227 (1.00) |
0.00439 (1.00) |
||
19q gain | 0 (0%) | 489 |
1.16e-06 (0.000453) |
0.00581 (1.00) |
0.636 (1.00) |
0.0523 (1.00) |
0.0161 (1.00) |
0.0069 (1.00) |
0.00249 (0.648) |
0.0012 (0.338) |
0.00735 (1.00) |
0.00111 (0.316) |
1p loss | 0 (0%) | 491 |
0.0003 (0.0929) |
0.582 (1.00) |
0.493 (1.00) |
0.183 (1.00) |
0.207 (1.00) |
0.355 (1.00) |
0.323 (1.00) |
0.27 (1.00) |
||
3q loss | 0 (0%) | 491 |
0.0003 (0.0929) |
0.0585 (1.00) |
0.0985 (1.00) |
0.0788 (1.00) |
0.0278 (1.00) |
0.018 (1.00) |
0.0701 (1.00) |
0.0172 (1.00) |
||
8p loss | 0 (0%) | 490 |
1.89e-05 (0.00685) |
0.0149 (1.00) |
0.0444 (1.00) |
0.0219 (1.00) |
0.00833 (1.00) |
0.00467 (1.00) |
0.0227 (1.00) |
0.00439 (1.00) |
||
8q loss | 0 (0%) | 490 |
1.89e-05 (0.00685) |
0.0149 (1.00) |
0.0444 (1.00) |
0.0219 (1.00) |
0.00833 (1.00) |
0.00467 (1.00) |
0.0227 (1.00) |
0.00439 (1.00) |
||
9p loss | 0 (0%) | 482 |
2.13e-11 (8.66e-09) |
0.0712 (1.00) |
0.56 (1.00) |
0.204 (1.00) |
0.0924 (1.00) |
0.134 (1.00) |
0.0506 (1.00) |
0.0401 (1.00) |
0.0792 (1.00) |
0.0276 (1.00) |
9q loss | 0 (0%) | 477 |
1.59e-13 (6.56e-11) |
0.111 (1.00) |
0.209 (1.00) |
0.00396 (0.977) |
0.182 (1.00) |
0.231 (1.00) |
0.0759 (1.00) |
0.0878 (1.00) |
0.108 (1.00) |
0.0555 (1.00) |
10p loss | 0 (0%) | 488 |
6.87e-08 (2.73e-05) |
0.0263 (1.00) |
0.0509 (1.00) |
0.0183 (1.00) |
0.00929 (1.00) |
0.00658 (1.00) |
0.0259 (1.00) |
0.00664 (1.00) |
||
10q loss | 0 (0%) | 489 |
1.16e-06 (0.000453) |
0.0757 (1.00) |
0.119 (1.00) |
0.0361 (1.00) |
0.0268 (1.00) |
0.0215 (1.00) |
0.0687 (1.00) |
0.0216 (1.00) |
||
11p loss | 0 (0%) | 487 |
7.98e-08 (3.17e-05) |
0.00956 (1.00) |
0.495 (1.00) |
1 (1.00) |
0.00712 (1.00) |
0.0174 (1.00) |
0.00316 (0.804) |
0.00196 (0.522) |
0.00954 (1.00) |
0.00199 (0.528) |
18p loss | 0 (0%) | 490 |
0.000207 (0.0668) |
0.22 (1.00) |
1 (1.00) |
0.284 (1.00) |
0.242 (1.00) |
0.121 (1.00) |
0.115 (1.00) |
0.037 (1.00) |
0.0227 (1.00) |
0.0402 (1.00) |
18q loss | 0 (0%) | 490 |
0.000207 (0.0668) |
0.22 (1.00) |
1 (1.00) |
0.284 (1.00) |
0.242 (1.00) |
0.121 (1.00) |
0.115 (1.00) |
0.037 (1.00) |
0.0227 (1.00) |
0.0402 (1.00) |
21q loss | 0 (0%) | 488 |
0.000191 (0.0621) |
0.0973 (1.00) |
0.384 (1.00) |
0.0523 (1.00) |
0.223 (1.00) |
0.226 (1.00) |
0.0684 (1.00) |
0.0841 (1.00) |
0.0892 (1.00) |
0.0459 (1.00) |
11p gain | 0 (0%) | 489 |
0.00134 (0.373) |
0.00581 (1.00) |
0.0161 (1.00) |
0.0069 (1.00) |
0.00249 (0.648) |
0.0012 (0.338) |
0.00735 (1.00) |
0.00111 (0.316) |
||
18p gain | 0 (0%) | 491 |
0.00246 (0.648) |
0.0585 (1.00) |
0.0985 (1.00) |
0.0788 (1.00) |
0.0278 (1.00) |
0.018 (1.00) |
0.0701 (1.00) |
0.0172 (1.00) |
||
18q gain | 0 (0%) | 491 |
0.00246 (0.648) |
0.0585 (1.00) |
0.0985 (1.00) |
0.0788 (1.00) |
0.0278 (1.00) |
0.018 (1.00) |
0.0701 (1.00) |
0.0172 (1.00) |
||
21q gain | 0 (0%) | 491 |
0.00246 (0.648) |
0.0585 (1.00) |
0.0985 (1.00) |
0.0788 (1.00) |
0.0278 (1.00) |
0.018 (1.00) |
0.0701 (1.00) |
0.0172 (1.00) |
||
6q loss | 0 (0%) | 491 |
0.0219 (1.00) |
0.0585 (1.00) |
0.0985 (1.00) |
0.0788 (1.00) |
0.0278 (1.00) |
0.018 (1.00) |
0.0701 (1.00) |
0.0172 (1.00) |
||
13q loss | 0 (0%) | 483 |
0.0122 (1.00) |
0.0243 (1.00) |
0.0774 (1.00) |
1 (1.00) |
0.0233 (1.00) |
0.0183 (1.00) |
0.00902 (1.00) |
0.00997 (1.00) |
0.00684 (1.00) |
0.0107 (1.00) |
17p loss | 0 (0%) | 487 |
0.00118 (0.333) |
0.525 (1.00) |
1 (1.00) |
0.284 (1.00) |
0.786 (1.00) |
0.887 (1.00) |
0.519 (1.00) |
0.493 (1.00) |
0.9 (1.00) |
0.44 (1.00) |
19p loss | 0 (0%) | 490 |
0.132 (1.00) |
0.0149 (1.00) |
0.278 (1.00) |
0.364 (1.00) |
0.0444 (1.00) |
0.0219 (1.00) |
0.00833 (1.00) |
0.00467 (1.00) |
0.0227 (1.00) |
0.00439 (1.00) |
P value = 3.68e-06 (Fisher's exact test), Q value = 0.0014
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
1Q GAIN CNV | 9 | 11 | 1 |
1Q GAIN WILD-TYPE | 25 | 372 | 76 |
P value = 1.89e-05 (Fisher's exact test), Q value = 0.0068
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
4P GAIN CNV | 4 | 0 | 0 |
4P GAIN WILD-TYPE | 30 | 383 | 77 |
P value = 1.89e-05 (Fisher's exact test), Q value = 0.0068
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
4Q GAIN CNV | 4 | 0 | 0 |
4Q GAIN WILD-TYPE | 30 | 383 | 77 |
P value = 7.68e-20 (Fisher's exact test), Q value = 3.2e-17
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
5P GAIN CNV | 16 | 1 | 0 |
5P GAIN WILD-TYPE | 18 | 382 | 77 |
P value = 0.000366 (Fisher's exact test), Q value = 0.11
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 151 | 83 | 260 |
5P GAIN CNV | 12 | 3 | 2 |
5P GAIN WILD-TYPE | 139 | 80 | 258 |
P value = 0.000204 (Fisher's exact test), Q value = 0.066
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 155 | 130 | 208 |
5P GAIN CNV | 0 | 11 | 6 |
5P GAIN WILD-TYPE | 155 | 119 | 202 |
P value = 0.000131 (Fisher's exact test), Q value = 0.044
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 199 | 128 | 166 |
5P GAIN CNV | 6 | 11 | 0 |
5P GAIN WILD-TYPE | 193 | 117 | 166 |
P value = 2.84e-18 (Fisher's exact test), Q value = 1.2e-15
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
5Q GAIN CNV | 14 | 0 | 0 |
5Q GAIN WILD-TYPE | 20 | 383 | 77 |
P value = 4.86e-05 (Fisher's exact test), Q value = 0.017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 151 | 83 | 260 |
5Q GAIN CNV | 12 | 1 | 1 |
5Q GAIN WILD-TYPE | 139 | 82 | 259 |
P value = 0.000231 (Fisher's exact test), Q value = 0.073
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 150 | 55 | 114 | 161 |
5Q GAIN CNV | 12 | 0 | 0 | 2 |
5Q GAIN WILD-TYPE | 138 | 55 | 114 | 159 |
P value = 8.87e-05 (Fisher's exact test), Q value = 0.03
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 132 | 212 | 94 | 42 |
5Q GAIN CNV | 12 | 2 | 0 | 0 |
5Q GAIN WILD-TYPE | 120 | 210 | 94 | 42 |
P value = 0.000436 (Fisher's exact test), Q value = 0.13
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 173 | 170 |
5Q GAIN CNV | 11 | 1 | 2 |
5Q GAIN WILD-TYPE | 139 | 172 | 168 |
P value = 2.79e-05 (Fisher's exact test), Q value = 0.0098
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 155 | 130 | 208 |
5Q GAIN CNV | 0 | 11 | 3 |
5Q GAIN WILD-TYPE | 155 | 119 | 205 |
P value = 2.13e-05 (Fisher's exact test), Q value = 0.0076
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 199 | 128 | 166 |
5Q GAIN CNV | 3 | 11 | 0 |
5Q GAIN WILD-TYPE | 196 | 117 | 166 |
P value = 1.76e-22 (Fisher's exact test), Q value = 7.3e-20
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
7P GAIN CNV | 17 | 0 | 0 |
7P GAIN WILD-TYPE | 17 | 383 | 77 |
P value = 0.000149 (Fisher's exact test), Q value = 0.049
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 151 | 83 | 260 |
7P GAIN CNV | 13 | 2 | 2 |
7P GAIN WILD-TYPE | 138 | 81 | 258 |
P value = 0.000536 (Fisher's exact test), Q value = 0.16
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 150 | 55 | 114 | 161 |
7P GAIN CNV | 13 | 0 | 1 | 2 |
7P GAIN WILD-TYPE | 137 | 55 | 113 | 159 |
P value = 0.000114 (Fisher's exact test), Q value = 0.038
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 132 | 212 | 94 | 42 |
7P GAIN CNV | 13 | 2 | 1 | 0 |
7P GAIN WILD-TYPE | 119 | 210 | 93 | 42 |
P value = 0.000255 (Fisher's exact test), Q value = 0.079
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 155 | 130 | 208 |
7P GAIN CNV | 1 | 12 | 4 |
7P GAIN WILD-TYPE | 154 | 118 | 204 |
P value = 0.000527 (Fisher's exact test), Q value = 0.16
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 163 | 169 | 161 |
7P GAIN CNV | 13 | 1 | 3 |
7P GAIN WILD-TYPE | 150 | 168 | 158 |
P value = 0.000184 (Fisher's exact test), Q value = 0.06
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 199 | 128 | 166 |
7P GAIN CNV | 4 | 12 | 1 |
7P GAIN WILD-TYPE | 195 | 116 | 165 |
P value = 1.95e-23 (Fisher's exact test), Q value = 8.1e-21
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
7Q GAIN CNV | 18 | 0 | 1 |
7Q GAIN WILD-TYPE | 16 | 383 | 76 |
P value = 2.06e-05 (Fisher's exact test), Q value = 0.0073
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 151 | 83 | 260 |
7Q GAIN CNV | 15 | 2 | 2 |
7Q GAIN WILD-TYPE | 136 | 81 | 258 |
P value = 7.11e-05 (Fisher's exact test), Q value = 0.024
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 150 | 55 | 114 | 161 |
7Q GAIN CNV | 15 | 0 | 1 | 2 |
7Q GAIN WILD-TYPE | 135 | 55 | 113 | 159 |
P value = 1.23e-05 (Fisher's exact test), Q value = 0.0045
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 132 | 212 | 94 | 42 |
7Q GAIN CNV | 15 | 2 | 1 | 0 |
7Q GAIN WILD-TYPE | 117 | 210 | 93 | 42 |
P value = 0.000332 (Fisher's exact test), Q value = 0.1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 173 | 170 |
7Q GAIN CNV | 14 | 2 | 3 |
7Q GAIN WILD-TYPE | 136 | 171 | 167 |
P value = 2.25e-05 (Fisher's exact test), Q value = 0.008
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 155 | 130 | 208 |
7Q GAIN CNV | 1 | 14 | 4 |
7Q GAIN WILD-TYPE | 154 | 116 | 204 |
P value = 7.82e-05 (Fisher's exact test), Q value = 0.026
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 163 | 169 | 161 |
7Q GAIN CNV | 15 | 1 | 3 |
7Q GAIN WILD-TYPE | 148 | 168 | 158 |
P value = 1.63e-05 (Fisher's exact test), Q value = 0.006
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 199 | 128 | 166 |
7Q GAIN CNV | 4 | 14 | 1 |
7Q GAIN WILD-TYPE | 195 | 114 | 165 |
P value = 0.000207 (Fisher's exact test), Q value = 0.067
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
11Q GAIN CNV | 3 | 0 | 1 |
11Q GAIN WILD-TYPE | 31 | 383 | 76 |
P value = 1.08e-12 (Fisher's exact test), Q value = 4.4e-10
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
12P GAIN CNV | 10 | 0 | 1 |
12P GAIN WILD-TYPE | 24 | 383 | 76 |
P value = 4.68e-06 (Fisher's exact test), Q value = 0.0018
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 151 | 83 | 260 |
12P GAIN CNV | 11 | 0 | 0 |
12P GAIN WILD-TYPE | 140 | 83 | 260 |
P value = 2.32e-05 (Fisher's exact test), Q value = 0.0082
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 150 | 55 | 114 | 161 |
12P GAIN CNV | 11 | 0 | 0 | 0 |
12P GAIN WILD-TYPE | 139 | 55 | 114 | 161 |
P value = 4.9e-06 (Fisher's exact test), Q value = 0.0018
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 132 | 212 | 94 | 42 |
12P GAIN CNV | 11 | 0 | 0 | 0 |
12P GAIN WILD-TYPE | 121 | 212 | 94 | 42 |
P value = 3.75e-05 (Fisher's exact test), Q value = 0.013
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 173 | 170 |
12P GAIN CNV | 10 | 0 | 1 |
12P GAIN WILD-TYPE | 140 | 173 | 169 |
P value = 1.29e-05 (Fisher's exact test), Q value = 0.0047
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 155 | 130 | 208 |
12P GAIN CNV | 0 | 10 | 1 |
12P GAIN WILD-TYPE | 155 | 120 | 207 |
P value = 0.000147 (Fisher's exact test), Q value = 0.048
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 163 | 169 | 161 |
12P GAIN CNV | 10 | 0 | 1 |
12P GAIN WILD-TYPE | 153 | 169 | 160 |
P value = 9.1e-06 (Fisher's exact test), Q value = 0.0034
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 199 | 128 | 166 |
12P GAIN CNV | 1 | 10 | 0 |
12P GAIN WILD-TYPE | 198 | 118 | 166 |
P value = 1.34e-12 (Fisher's exact test), Q value = 5.5e-10
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
12Q GAIN CNV | 10 | 0 | 2 |
12Q GAIN WILD-TYPE | 24 | 383 | 75 |
P value = 1.51e-06 (Fisher's exact test), Q value = 0.00059
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 151 | 83 | 260 |
12Q GAIN CNV | 12 | 0 | 0 |
12Q GAIN WILD-TYPE | 139 | 83 | 260 |
P value = 7.58e-06 (Fisher's exact test), Q value = 0.0028
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 150 | 55 | 114 | 161 |
12Q GAIN CNV | 12 | 0 | 0 | 0 |
12Q GAIN WILD-TYPE | 138 | 55 | 114 | 161 |
P value = 1.57e-06 (Fisher's exact test), Q value = 0.00061
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 132 | 212 | 94 | 42 |
12Q GAIN CNV | 12 | 0 | 0 | 0 |
12Q GAIN WILD-TYPE | 120 | 212 | 94 | 42 |
P value = 1.21e-05 (Fisher's exact test), Q value = 0.0045
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 173 | 170 |
12Q GAIN CNV | 11 | 0 | 1 |
12Q GAIN WILD-TYPE | 139 | 173 | 169 |
P value = 3.57e-06 (Fisher's exact test), Q value = 0.0014
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 155 | 130 | 208 |
12Q GAIN CNV | 0 | 11 | 1 |
12Q GAIN WILD-TYPE | 155 | 119 | 207 |
P value = 5.02e-05 (Fisher's exact test), Q value = 0.017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 163 | 169 | 161 |
12Q GAIN CNV | 11 | 0 | 1 |
12Q GAIN WILD-TYPE | 152 | 169 | 160 |
P value = 2.43e-06 (Fisher's exact test), Q value = 0.00093
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 199 | 128 | 166 |
12Q GAIN CNV | 1 | 11 | 0 |
12Q GAIN WILD-TYPE | 198 | 117 | 166 |
P value = 3e-04 (Fisher's exact test), Q value = 0.093
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
13Q GAIN CNV | 3 | 0 | 0 |
13Q GAIN WILD-TYPE | 31 | 383 | 77 |
P value = 5.2e-09 (Fisher's exact test), Q value = 2.1e-06
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
14Q GAIN CNV | 7 | 0 | 1 |
14Q GAIN WILD-TYPE | 27 | 383 | 76 |
P value = 0.000139 (Fisher's exact test), Q value = 0.046
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 151 | 83 | 260 |
14Q GAIN CNV | 8 | 0 | 0 |
14Q GAIN WILD-TYPE | 143 | 83 | 260 |
P value = 0.000645 (Fisher's exact test), Q value = 0.19
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 150 | 55 | 114 | 161 |
14Q GAIN CNV | 8 | 0 | 0 | 0 |
14Q GAIN WILD-TYPE | 142 | 55 | 114 | 161 |
P value = 0.000218 (Fisher's exact test), Q value = 0.07
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 132 | 212 | 94 | 42 |
14Q GAIN CNV | 8 | 0 | 0 | 0 |
14Q GAIN WILD-TYPE | 124 | 212 | 94 | 42 |
P value = 0.000573 (Fisher's exact test), Q value = 0.17
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 155 | 130 | 208 |
14Q GAIN CNV | 0 | 7 | 1 |
14Q GAIN WILD-TYPE | 155 | 123 | 207 |
P value = 0.000587 (Fisher's exact test), Q value = 0.17
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 199 | 128 | 166 |
14Q GAIN CNV | 1 | 7 | 0 |
14Q GAIN WILD-TYPE | 198 | 121 | 166 |
P value = 5.86e-14 (Fisher's exact test), Q value = 2.4e-11
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
16P GAIN CNV | 11 | 0 | 1 |
16P GAIN WILD-TYPE | 23 | 383 | 76 |
P value = 1.21e-05 (Fisher's exact test), Q value = 0.0045
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 151 | 83 | 260 |
16P GAIN CNV | 11 | 1 | 0 |
16P GAIN WILD-TYPE | 140 | 82 | 260 |
P value = 0.000225 (Fisher's exact test), Q value = 0.071
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 150 | 55 | 114 | 161 |
16P GAIN CNV | 11 | 0 | 0 | 1 |
16P GAIN WILD-TYPE | 139 | 55 | 114 | 160 |
P value = 4.56e-05 (Fisher's exact test), Q value = 0.016
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 132 | 212 | 94 | 42 |
16P GAIN CNV | 11 | 1 | 0 | 0 |
16P GAIN WILD-TYPE | 121 | 211 | 94 | 42 |
P value = 0.000181 (Fisher's exact test), Q value = 0.059
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 173 | 170 |
16P GAIN CNV | 10 | 0 | 2 |
16P GAIN WILD-TYPE | 140 | 173 | 168 |
P value = 4.67e-05 (Fisher's exact test), Q value = 0.016
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 155 | 130 | 208 |
16P GAIN CNV | 0 | 10 | 2 |
16P GAIN WILD-TYPE | 155 | 120 | 206 |
P value = 0.000388 (Fisher's exact test), Q value = 0.12
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 163 | 169 | 161 |
16P GAIN CNV | 10 | 0 | 2 |
16P GAIN WILD-TYPE | 153 | 169 | 159 |
P value = 2.42e-05 (Fisher's exact test), Q value = 0.0085
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 199 | 128 | 166 |
16P GAIN CNV | 2 | 10 | 0 |
16P GAIN WILD-TYPE | 197 | 118 | 166 |
P value = 6.03e-13 (Fisher's exact test), Q value = 2.5e-10
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
16Q GAIN CNV | 10 | 0 | 0 |
16Q GAIN WILD-TYPE | 24 | 383 | 77 |
P value = 6.6e-05 (Fisher's exact test), Q value = 0.023
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 151 | 83 | 260 |
16Q GAIN CNV | 9 | 1 | 0 |
16Q GAIN WILD-TYPE | 142 | 82 | 260 |
P value = 0.000415 (Fisher's exact test), Q value = 0.12
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 132 | 212 | 94 | 42 |
16Q GAIN CNV | 9 | 1 | 0 | 0 |
16Q GAIN WILD-TYPE | 123 | 211 | 94 | 42 |
P value = 0.000637 (Fisher's exact test), Q value = 0.19
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 155 | 130 | 208 |
16Q GAIN CNV | 0 | 8 | 2 |
16Q GAIN WILD-TYPE | 155 | 122 | 206 |
P value = 5e-04 (Fisher's exact test), Q value = 0.15
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 199 | 128 | 166 |
16Q GAIN CNV | 2 | 8 | 0 |
16Q GAIN WILD-TYPE | 197 | 120 | 166 |
P value = 1.99e-09 (Fisher's exact test), Q value = 8e-07
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
17P GAIN CNV | 9 | 2 | 1 |
17P GAIN WILD-TYPE | 25 | 381 | 76 |
P value = 1.51e-06 (Fisher's exact test), Q value = 0.00059
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 151 | 83 | 260 |
17P GAIN CNV | 12 | 0 | 0 |
17P GAIN WILD-TYPE | 139 | 83 | 260 |
P value = 7.58e-06 (Fisher's exact test), Q value = 0.0028
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 150 | 55 | 114 | 161 |
17P GAIN CNV | 12 | 0 | 0 | 0 |
17P GAIN WILD-TYPE | 138 | 55 | 114 | 161 |
P value = 1.57e-06 (Fisher's exact test), Q value = 0.00061
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 132 | 212 | 94 | 42 |
17P GAIN CNV | 12 | 0 | 0 | 0 |
17P GAIN WILD-TYPE | 120 | 212 | 94 | 42 |
P value = 1.21e-05 (Fisher's exact test), Q value = 0.0045
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 173 | 170 |
17P GAIN CNV | 11 | 0 | 1 |
17P GAIN WILD-TYPE | 139 | 173 | 169 |
P value = 3.57e-06 (Fisher's exact test), Q value = 0.0014
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 155 | 130 | 208 |
17P GAIN CNV | 0 | 11 | 1 |
17P GAIN WILD-TYPE | 155 | 119 | 207 |
P value = 5.02e-05 (Fisher's exact test), Q value = 0.017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 163 | 169 | 161 |
17P GAIN CNV | 11 | 0 | 1 |
17P GAIN WILD-TYPE | 152 | 169 | 160 |
P value = 2.43e-06 (Fisher's exact test), Q value = 0.00093
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 199 | 128 | 166 |
17P GAIN CNV | 1 | 11 | 0 |
17P GAIN WILD-TYPE | 198 | 117 | 166 |
P value = 3.8e-09 (Fisher's exact test), Q value = 1.5e-06
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
17Q GAIN CNV | 9 | 2 | 2 |
17Q GAIN WILD-TYPE | 25 | 381 | 75 |
P value = 3.34e-07 (Fisher's exact test), Q value = 0.00013
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 151 | 83 | 260 |
17Q GAIN CNV | 13 | 0 | 0 |
17Q GAIN WILD-TYPE | 138 | 83 | 260 |
P value = 2.22e-06 (Fisher's exact test), Q value = 0.00085
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 150 | 55 | 114 | 161 |
17Q GAIN CNV | 13 | 0 | 0 | 0 |
17Q GAIN WILD-TYPE | 137 | 55 | 114 | 161 |
P value = 3.35e-07 (Fisher's exact test), Q value = 0.00013
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 132 | 212 | 94 | 42 |
17Q GAIN CNV | 13 | 0 | 0 | 0 |
17Q GAIN WILD-TYPE | 119 | 212 | 94 | 42 |
P value = 3.86e-06 (Fisher's exact test), Q value = 0.0015
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 173 | 170 |
17Q GAIN CNV | 12 | 0 | 1 |
17Q GAIN WILD-TYPE | 138 | 173 | 169 |
P value = 9.76e-07 (Fisher's exact test), Q value = 0.00038
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 155 | 130 | 208 |
17Q GAIN CNV | 0 | 12 | 1 |
17Q GAIN WILD-TYPE | 155 | 118 | 207 |
P value = 1.69e-05 (Fisher's exact test), Q value = 0.0062
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 163 | 169 | 161 |
17Q GAIN CNV | 12 | 0 | 1 |
17Q GAIN WILD-TYPE | 151 | 169 | 160 |
P value = 6.38e-07 (Fisher's exact test), Q value = 0.00025
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 199 | 128 | 166 |
17Q GAIN CNV | 1 | 12 | 0 |
17Q GAIN WILD-TYPE | 198 | 116 | 166 |
P value = 1.89e-05 (Fisher's exact test), Q value = 0.0068
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
19P GAIN CNV | 4 | 0 | 0 |
19P GAIN WILD-TYPE | 30 | 383 | 77 |
P value = 1.16e-06 (Fisher's exact test), Q value = 0.00045
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
19Q GAIN CNV | 5 | 0 | 0 |
19Q GAIN WILD-TYPE | 29 | 383 | 77 |
P value = 1.17e-11 (Fisher's exact test), Q value = 4.8e-09
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
20P GAIN CNV | 9 | 0 | 0 |
20P GAIN WILD-TYPE | 25 | 383 | 77 |
P value = 0.000251 (Fisher's exact test), Q value = 0.079
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 151 | 83 | 260 |
20P GAIN CNV | 8 | 1 | 0 |
20P GAIN WILD-TYPE | 143 | 82 | 260 |
P value = 1.17e-11 (Fisher's exact test), Q value = 4.8e-09
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
20Q GAIN CNV | 9 | 0 | 0 |
20Q GAIN WILD-TYPE | 25 | 383 | 77 |
P value = 0.000251 (Fisher's exact test), Q value = 0.079
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 151 | 83 | 260 |
20Q GAIN CNV | 8 | 1 | 0 |
20Q GAIN WILD-TYPE | 143 | 82 | 260 |
P value = 3e-04 (Fisher's exact test), Q value = 0.093
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
1P LOSS CNV | 3 | 0 | 0 |
1P LOSS WILD-TYPE | 31 | 383 | 77 |
P value = 5.2e-09 (Fisher's exact test), Q value = 2.1e-06
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
2P LOSS CNV | 7 | 0 | 1 |
2P LOSS WILD-TYPE | 27 | 383 | 76 |
P value = 0.000139 (Fisher's exact test), Q value = 0.046
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 151 | 83 | 260 |
2P LOSS CNV | 8 | 0 | 0 |
2P LOSS WILD-TYPE | 143 | 83 | 260 |
P value = 0.000645 (Fisher's exact test), Q value = 0.19
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 150 | 55 | 114 | 161 |
2P LOSS CNV | 8 | 0 | 0 | 0 |
2P LOSS WILD-TYPE | 142 | 55 | 114 | 161 |
P value = 0.000218 (Fisher's exact test), Q value = 0.07
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 132 | 212 | 94 | 42 |
2P LOSS CNV | 8 | 0 | 0 | 0 |
2P LOSS WILD-TYPE | 124 | 212 | 94 | 42 |
P value = 6.43e-05 (Fisher's exact test), Q value = 0.022
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 173 | 170 |
2P LOSS CNV | 8 | 0 | 0 |
2P LOSS WILD-TYPE | 142 | 173 | 170 |
P value = 1.99e-05 (Fisher's exact test), Q value = 0.0071
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 155 | 130 | 208 |
2P LOSS CNV | 0 | 8 | 0 |
2P LOSS WILD-TYPE | 155 | 122 | 208 |
P value = 0.000242 (Fisher's exact test), Q value = 0.076
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 163 | 169 | 161 |
2P LOSS CNV | 8 | 0 | 0 |
2P LOSS WILD-TYPE | 155 | 169 | 161 |
P value = 1.75e-05 (Fisher's exact test), Q value = 0.0063
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 199 | 128 | 166 |
2P LOSS CNV | 0 | 8 | 0 |
2P LOSS WILD-TYPE | 199 | 120 | 166 |
P value = 3.94e-09 (Fisher's exact test), Q value = 1.6e-06
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
2Q LOSS CNV | 7 | 0 | 0 |
2Q LOSS WILD-TYPE | 27 | 383 | 77 |
P value = 0.000343 (Fisher's exact test), Q value = 0.1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 151 | 83 | 260 |
2Q LOSS CNV | 7 | 0 | 0 |
2Q LOSS WILD-TYPE | 144 | 83 | 260 |
P value = 0.000675 (Fisher's exact test), Q value = 0.2
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 132 | 212 | 94 | 42 |
2Q LOSS CNV | 7 | 0 | 0 | 0 |
2Q LOSS WILD-TYPE | 125 | 212 | 94 | 42 |
P value = 0.000219 (Fisher's exact test), Q value = 0.07
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 173 | 170 |
2Q LOSS CNV | 7 | 0 | 0 |
2Q LOSS WILD-TYPE | 143 | 173 | 170 |
P value = 7.85e-05 (Fisher's exact test), Q value = 0.026
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 155 | 130 | 208 |
2Q LOSS CNV | 0 | 7 | 0 |
2Q LOSS WILD-TYPE | 155 | 123 | 208 |
P value = 0.000758 (Fisher's exact test), Q value = 0.22
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 163 | 169 | 161 |
2Q LOSS CNV | 7 | 0 | 0 |
2Q LOSS WILD-TYPE | 156 | 169 | 161 |
P value = 7.02e-05 (Fisher's exact test), Q value = 0.024
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 199 | 128 | 166 |
2Q LOSS CNV | 0 | 7 | 0 |
2Q LOSS WILD-TYPE | 199 | 121 | 166 |
P value = 3e-04 (Fisher's exact test), Q value = 0.093
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
3Q LOSS CNV | 3 | 0 | 0 |
3Q LOSS WILD-TYPE | 31 | 383 | 77 |
P value = 1.89e-05 (Fisher's exact test), Q value = 0.0068
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
8P LOSS CNV | 4 | 0 | 0 |
8P LOSS WILD-TYPE | 30 | 383 | 77 |
P value = 1.89e-05 (Fisher's exact test), Q value = 0.0068
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
8Q LOSS CNV | 4 | 0 | 0 |
8Q LOSS WILD-TYPE | 30 | 383 | 77 |
P value = 2.13e-11 (Fisher's exact test), Q value = 8.7e-09
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
9P LOSS CNV | 10 | 1 | 1 |
9P LOSS WILD-TYPE | 24 | 382 | 76 |
P value = 1.59e-13 (Fisher's exact test), Q value = 6.6e-11
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
9Q LOSS CNV | 13 | 3 | 1 |
9Q LOSS WILD-TYPE | 21 | 380 | 76 |
P value = 6.87e-08 (Fisher's exact test), Q value = 2.7e-05
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
10P LOSS CNV | 6 | 0 | 0 |
10P LOSS WILD-TYPE | 28 | 383 | 77 |
P value = 1.16e-06 (Fisher's exact test), Q value = 0.00045
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
10Q LOSS CNV | 5 | 0 | 0 |
10Q LOSS WILD-TYPE | 29 | 383 | 77 |
P value = 7.98e-08 (Fisher's exact test), Q value = 3.2e-05
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
11P LOSS CNV | 6 | 0 | 1 |
11P LOSS WILD-TYPE | 28 | 383 | 76 |
P value = 3.28e-06 (Fisher's exact test), Q value = 0.0012
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
11Q LOSS CNV | 6 | 2 | 1 |
11Q LOSS WILD-TYPE | 28 | 381 | 76 |
P value = 0.000352 (Fisher's exact test), Q value = 0.11
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 173 | 170 |
11Q LOSS CNV | 8 | 0 | 1 |
11Q LOSS WILD-TYPE | 142 | 173 | 169 |
P value = 0.000653 (Fisher's exact test), Q value = 0.19
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
15Q LOSS CNV | 4 | 2 | 1 |
15Q LOSS WILD-TYPE | 30 | 381 | 76 |
P value = 0.000343 (Fisher's exact test), Q value = 0.1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 151 | 83 | 260 |
15Q LOSS CNV | 7 | 0 | 0 |
15Q LOSS WILD-TYPE | 144 | 83 | 260 |
P value = 0.000675 (Fisher's exact test), Q value = 0.2
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 132 | 212 | 94 | 42 |
15Q LOSS CNV | 7 | 0 | 0 | 0 |
15Q LOSS WILD-TYPE | 125 | 212 | 94 | 42 |
P value = 0.000219 (Fisher's exact test), Q value = 0.07
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 173 | 170 |
15Q LOSS CNV | 7 | 0 | 0 |
15Q LOSS WILD-TYPE | 143 | 173 | 170 |
P value = 7.85e-05 (Fisher's exact test), Q value = 0.026
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 155 | 130 | 208 |
15Q LOSS CNV | 0 | 7 | 0 |
15Q LOSS WILD-TYPE | 155 | 123 | 208 |
P value = 0.000758 (Fisher's exact test), Q value = 0.22
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 163 | 169 | 161 |
15Q LOSS CNV | 7 | 0 | 0 |
15Q LOSS WILD-TYPE | 156 | 169 | 161 |
P value = 7.02e-05 (Fisher's exact test), Q value = 0.024
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 199 | 128 | 166 |
15Q LOSS CNV | 0 | 7 | 0 |
15Q LOSS WILD-TYPE | 199 | 121 | 166 |
P value = 0.000207 (Fisher's exact test), Q value = 0.067
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
18P LOSS CNV | 3 | 0 | 1 |
18P LOSS WILD-TYPE | 31 | 383 | 76 |
P value = 0.000207 (Fisher's exact test), Q value = 0.067
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
18Q LOSS CNV | 3 | 0 | 1 |
18Q LOSS WILD-TYPE | 31 | 383 | 76 |
P value = 0.000191 (Fisher's exact test), Q value = 0.062
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
21Q LOSS CNV | 4 | 1 | 1 |
21Q LOSS WILD-TYPE | 30 | 382 | 76 |
P value = 4.98e-57 (Fisher's exact test), Q value = 2.1e-54
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 383 | 77 |
22Q LOSS CNV | 8 | 0 | 57 |
22Q LOSS WILD-TYPE | 26 | 383 | 20 |
P value = 4.44e-05 (Fisher's exact test), Q value = 0.015
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 151 | 83 | 260 |
22Q LOSS CNV | 36 | 7 | 22 |
22Q LOSS WILD-TYPE | 115 | 76 | 238 |
P value = 6.84e-11 (Fisher's exact test), Q value = 2.8e-08
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 150 | 55 | 114 | 161 |
22Q LOSS CNV | 35 | 5 | 20 | 1 |
22Q LOSS WILD-TYPE | 115 | 50 | 94 | 160 |
P value = 8.07e-11 (Fisher's exact test), Q value = 3.3e-08
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 132 | 212 | 94 | 42 |
22Q LOSS CNV | 35 | 7 | 18 | 1 |
22Q LOSS WILD-TYPE | 97 | 205 | 76 | 41 |
P value = 3.24e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 173 | 170 |
22Q LOSS CNV | 36 | 16 | 13 |
22Q LOSS WILD-TYPE | 114 | 157 | 157 |
P value = 5.3e-06 (Fisher's exact test), Q value = 0.002
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 155 | 130 | 208 |
22Q LOSS CNV | 16 | 34 | 15 |
22Q LOSS WILD-TYPE | 139 | 96 | 193 |
P value = 1.56e-07 (Fisher's exact test), Q value = 6.2e-05
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 163 | 169 | 161 |
22Q LOSS CNV | 42 | 11 | 12 |
22Q LOSS WILD-TYPE | 121 | 158 | 149 |
P value = 3.09e-06 (Fisher's exact test), Q value = 0.0012
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 199 | 128 | 166 |
22Q LOSS CNV | 14 | 34 | 17 |
22Q LOSS WILD-TYPE | 185 | 94 | 149 |
-
Mutation data file = broad_values_by_arm.mutsig.cluster.txt
-
Molecular subtypes file = THCA-TP.transferedmergedcluster.txt
-
Number of patients = 494
-
Number of significantly arm-level cnvs = 45
-
Number of molecular subtypes = 10
-
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.