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 497 patients, 128 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', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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5q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', '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', 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', and 'MRNASEQ_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', 'MIRSEQ_MATURE_CNMF', 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'.
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15q loss cnv correlated to 'CN_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%) | 478 |
1.76e-23 (7.13e-21) |
3.65e-05 (0.0124) |
0.689 (1.00) |
0.00298 (0.752) |
5.06e-05 (0.0168) |
6.18e-06 (0.00224) |
0.000289 (0.0879) |
2.87e-05 (0.00992) |
0.0002 (0.0622) |
3.59e-05 (0.0122) |
12p gain | 0 (0%) | 486 |
1.03e-12 (4.09e-10) |
2.87e-06 (0.00107) |
0.901 (1.00) |
0.0299 (1.00) |
1.6e-05 (0.00577) |
2.12e-06 (0.000794) |
5.19e-05 (0.0172) |
1.7e-05 (0.00606) |
3.43e-05 (0.0118) |
2e-05 (0.00701) |
12q gain | 0 (0%) | 485 |
1.27e-12 (5.04e-10) |
6.48e-07 (0.000248) |
0.901 (1.00) |
0.0299 (1.00) |
4.46e-06 (0.00165) |
6.49e-07 (0.000248) |
1.64e-05 (0.00588) |
4.85e-06 (0.00179) |
6.11e-06 (0.00222) |
5.76e-06 (0.00211) |
16p gain | 0 (0%) | 485 |
5.51e-14 (2.21e-11) |
3.21e-05 (0.011) |
1 (1.00) |
0.0445 (1.00) |
0.000132 (0.0422) |
2.69e-05 (0.00935) |
0.000214 (0.0657) |
5.88e-05 (0.0194) |
8.28e-05 (0.0271) |
8.35e-05 (0.0272) |
17p gain | 0 (0%) | 485 |
2e-09 (7.81e-07) |
6.48e-07 (0.000248) |
0.772 (1.00) |
0.0179 (1.00) |
4.46e-06 (0.00165) |
6.49e-07 (0.000248) |
5.19e-05 (0.0172) |
1.7e-05 (0.00606) |
3.43e-05 (0.0118) |
2e-05 (0.00701) |
17q gain | 0 (0%) | 484 |
3.83e-09 (1.49e-06) |
3.73e-07 (0.000143) |
0.795 (1.00) |
0.0206 (1.00) |
1.51e-06 (0.000569) |
1.6e-07 (6.15e-05) |
1.64e-05 (0.00588) |
4.85e-06 (0.00179) |
6.11e-06 (0.00222) |
5.76e-06 (0.00211) |
2p loss | 0 (0%) | 489 |
5.02e-09 (1.95e-06) |
8.76e-05 (0.0285) |
1 (1.00) |
0.0817 (1.00) |
0.000325 (0.0975) |
0.000148 (0.0472) |
5.53e-05 (0.0182) |
2.27e-05 (0.0079) |
4.85e-05 (0.0162) |
2.81e-05 (0.00973) |
22q loss | 0 (0%) | 431 |
6.79e-58 (2.76e-55) |
4.45e-05 (0.015) |
0.114 (1.00) |
0.0835 (1.00) |
2.26e-11 (8.89e-09) |
2.59e-11 (1.01e-08) |
4.33e-05 (0.0146) |
9.51e-06 (0.00343) |
3.93e-05 (0.0133) |
4.85e-06 (0.00179) |
2q loss | 0 (0%) | 490 |
3.78e-09 (1.47e-06) |
0.000364 (0.108) |
0.837 (1.00) |
0.0549 (1.00) |
0.00153 (0.409) |
0.000534 (0.155) |
0.000192 (0.06) |
8.85e-05 (0.0286) |
0.000171 (0.0538) |
0.000107 (0.0342) |
5q gain | 0 (0%) | 483 |
2.6e-18 (1.05e-15) |
4.02e-05 (0.0136) |
0.901 (1.00) |
0.0299 (1.00) |
0.000164 (0.0518) |
4.71e-05 (0.0158) |
0.00146 (0.392) |
0.000106 (0.0341) |
0.000991 (0.275) |
0.000119 (0.0379) |
7p gain | 0 (0%) | 480 |
1.59e-22 (6.42e-20) |
0.000169 (0.0531) |
1 (1.00) |
0.0129 (1.00) |
0.00041 (0.121) |
6.05e-05 (0.0199) |
0.00232 (0.601) |
0.000272 (0.0829) |
0.00135 (0.367) |
0.000418 (0.122) |
16q gain | 0 (0%) | 487 |
5.67e-13 (2.26e-10) |
0.000224 (0.0686) |
0.856 (1.00) |
0.129 (1.00) |
0.00131 (0.361) |
0.00039 (0.115) |
0.00169 (0.448) |
0.000547 (0.157) |
0.000713 (0.201) |
0.000758 (0.212) |
15q loss | 0 (0%) | 490 |
0.000464 (0.135) |
0.00226 (0.594) |
0.458 (1.00) |
0.256 (1.00) |
0.00153 (0.409) |
0.000534 (0.155) |
0.000664 (0.189) |
0.000342 (0.102) |
0.000602 (0.172) |
0.000402 (0.118) |
5p gain | 0 (0%) | 480 |
6.97e-20 (2.81e-17) |
0.000873 (0.244) |
1 (1.00) |
0.125 (1.00) |
0.00235 (0.607) |
0.000538 (0.156) |
0.00691 (1.00) |
0.000541 (0.156) |
0.00487 (1.00) |
0.00075 (0.211) |
14q gain | 0 (0%) | 489 |
5.02e-09 (1.95e-06) |
8.76e-05 (0.0285) |
1 (1.00) |
0.256 (1.00) |
0.000325 (0.0975) |
0.000148 (0.0472) |
0.00467 (1.00) |
0.00229 (0.599) |
0.00291 (0.735) |
0.00256 (0.65) |
20p gain | 0 (0%) | 488 |
1.11e-11 (4.37e-09) |
0.000706 (0.2) |
1 (1.00) |
0.0817 (1.00) |
0.00374 (0.939) |
0.00144 (0.391) |
0.0124 (1.00) |
0.00619 (1.00) |
0.00573 (1.00) |
0.00645 (1.00) |
20q gain | 0 (0%) | 488 |
1.11e-11 (4.37e-09) |
0.000706 (0.2) |
1 (1.00) |
0.0817 (1.00) |
0.00374 (0.939) |
0.00144 (0.391) |
0.0124 (1.00) |
0.00619 (1.00) |
0.00573 (1.00) |
0.00645 (1.00) |
1q gain | 0 (0%) | 476 |
3.29e-06 (0.00122) |
0.0744 (1.00) |
0.0153 (1.00) |
0.0826 (1.00) |
0.012 (1.00) |
0.00102 (0.283) |
0.224 (1.00) |
0.204 (1.00) |
0.177 (1.00) |
0.216 (1.00) |
4p gain | 0 (0%) | 493 |
1.85e-05 (0.00655) |
0.0186 (1.00) |
0.0378 (1.00) |
0.0215 (1.00) |
0.112 (1.00) |
0.0975 (1.00) |
0.0719 (1.00) |
0.101 (1.00) |
||
4q gain | 0 (0%) | 493 |
1.85e-05 (0.00655) |
0.0186 (1.00) |
0.0378 (1.00) |
0.0215 (1.00) |
0.112 (1.00) |
0.0975 (1.00) |
0.0719 (1.00) |
0.101 (1.00) |
||
11q gain | 0 (0%) | 493 |
0.000204 (0.0633) |
0.0186 (1.00) |
0.0378 (1.00) |
0.0215 (1.00) |
0.00778 (1.00) |
0.00503 (1.00) |
0.0073 (1.00) |
0.00558 (1.00) |
||
13q gain | 0 (0%) | 494 |
0.000294 (0.0892) |
0.0489 (1.00) |
0.103 (1.00) |
0.0656 (1.00) |
||||||
19p gain | 0 (0%) | 493 |
1.85e-05 (0.00655) |
0.0186 (1.00) |
0.0378 (1.00) |
0.0215 (1.00) |
0.0264 (1.00) |
0.0191 (1.00) |
0.0252 (1.00) |
0.0206 (1.00) |
||
19q gain | 0 (0%) | 492 |
1.12e-06 (0.000425) |
0.00421 (1.00) |
0.636 (1.00) |
0.0551 (1.00) |
0.0127 (1.00) |
0.00552 (1.00) |
0.00778 (1.00) |
0.00503 (1.00) |
0.0073 (1.00) |
0.00558 (1.00) |
1p loss | 0 (0%) | 494 |
0.000294 (0.0892) |
0.554 (1.00) |
0.503 (1.00) |
0.184 (1.00) |
0.3 (1.00) |
0.276 (1.00) |
0.2 (1.00) |
0.282 (1.00) |
||
3q loss | 0 (0%) | 494 |
0.000294 (0.0892) |
0.0489 (1.00) |
0.103 (1.00) |
0.0656 (1.00) |
0.0264 (1.00) |
0.0191 (1.00) |
0.0252 (1.00) |
0.0206 (1.00) |
||
8p loss | 0 (0%) | 493 |
1.85e-05 (0.00655) |
0.0457 (1.00) |
0.0378 (1.00) |
0.0215 (1.00) |
0.00778 (1.00) |
0.00503 (1.00) |
0.0073 (1.00) |
0.00558 (1.00) |
||
8q loss | 0 (0%) | 493 |
1.85e-05 (0.00655) |
0.0457 (1.00) |
0.0378 (1.00) |
0.0215 (1.00) |
0.00778 (1.00) |
0.00503 (1.00) |
0.0073 (1.00) |
0.00558 (1.00) |
||
9p loss | 0 (0%) | 485 |
1.08e-11 (4.26e-09) |
0.267 (1.00) |
0.559 (1.00) |
0.206 (1.00) |
0.0911 (1.00) |
0.0944 (1.00) |
0.185 (1.00) |
0.159 (1.00) |
0.15 (1.00) |
0.176 (1.00) |
9q loss | 0 (0%) | 480 |
1.58e-13 (6.32e-11) |
0.177 (1.00) |
0.21 (1.00) |
0.00441 (1.00) |
0.19 (1.00) |
0.139 (1.00) |
0.235 (1.00) |
0.228 (1.00) |
0.168 (1.00) |
0.241 (1.00) |
10p loss | 0 (0%) | 491 |
6.62e-08 (2.56e-05) |
0.0944 (1.00) |
0.0479 (1.00) |
0.0142 (1.00) |
0.0399 (1.00) |
0.0333 (1.00) |
0.0251 (1.00) |
0.0348 (1.00) |
||
10q loss | 0 (0%) | 492 |
1.12e-06 (0.000425) |
0.171 (1.00) |
0.104 (1.00) |
0.0415 (1.00) |
0.112 (1.00) |
0.0975 (1.00) |
0.0719 (1.00) |
0.101 (1.00) |
||
11p loss | 0 (0%) | 490 |
7.74e-08 (2.98e-05) |
0.0116 (1.00) |
0.499 (1.00) |
1 (1.00) |
0.00603 (1.00) |
0.0143 (1.00) |
0.0399 (1.00) |
0.0333 (1.00) |
0.0251 (1.00) |
0.0348 (1.00) |
11q loss | 0 (0%) | 488 |
3.24e-06 (0.00121) |
0.0142 (1.00) |
0.388 (1.00) |
0.798 (1.00) |
0.0143 (1.00) |
0.0148 (1.00) |
0.0138 (1.00) |
0.0075 (1.00) |
0.00862 (1.00) |
0.0117 (1.00) |
18p loss | 0 (0%) | 493 |
0.000204 (0.0633) |
0.186 (1.00) |
1 (1.00) |
0.369 (1.00) |
0.224 (1.00) |
0.0814 (1.00) |
0.0743 (1.00) |
0.0671 (1.00) |
0.109 (1.00) |
0.0681 (1.00) |
18q loss | 0 (0%) | 493 |
0.000204 (0.0633) |
0.186 (1.00) |
1 (1.00) |
0.369 (1.00) |
0.224 (1.00) |
0.0814 (1.00) |
0.0743 (1.00) |
0.0671 (1.00) |
0.109 (1.00) |
0.0681 (1.00) |
21q loss | 0 (0%) | 491 |
0.000192 (0.06) |
0.0944 (1.00) |
0.384 (1.00) |
0.0551 (1.00) |
0.209 (1.00) |
0.222 (1.00) |
0.0399 (1.00) |
0.0333 (1.00) |
0.0251 (1.00) |
0.0348 (1.00) |
11p gain | 0 (0%) | 492 |
0.00134 (0.366) |
0.00421 (1.00) |
0.0127 (1.00) |
0.00552 (1.00) |
0.00228 (0.597) |
0.00132 (0.361) |
0.0021 (0.555) |
0.0015 (0.403) |
||
18p gain | 0 (0%) | 494 |
0.00245 (0.629) |
0.0489 (1.00) |
0.103 (1.00) |
0.0656 (1.00) |
||||||
18q gain | 0 (0%) | 494 |
0.00245 (0.629) |
0.0489 (1.00) |
0.103 (1.00) |
0.0656 (1.00) |
||||||
21q gain | 0 (0%) | 494 |
0.00245 (0.629) |
0.0489 (1.00) |
0.103 (1.00) |
0.0656 (1.00) |
0.0264 (1.00) |
0.0191 (1.00) |
0.0252 (1.00) |
0.0206 (1.00) |
||
6q loss | 0 (0%) | 494 |
0.0218 (1.00) |
0.0489 (1.00) |
0.103 (1.00) |
0.0656 (1.00) |
0.0264 (1.00) |
0.0191 (1.00) |
0.0252 (1.00) |
0.0206 (1.00) |
||
13q loss | 0 (0%) | 486 |
0.0123 (1.00) |
0.0227 (1.00) |
0.0779 (1.00) |
1 (1.00) |
0.0208 (1.00) |
0.0129 (1.00) |
0.00774 (1.00) |
0.0164 (1.00) |
0.0086 (1.00) |
0.0023 (0.599) |
17p loss | 0 (0%) | 490 |
0.00118 (0.326) |
1 (1.00) |
1 (1.00) |
1 (1.00) |
0.79 (1.00) |
0.755 (1.00) |
0.518 (1.00) |
0.499 (1.00) |
0.799 (1.00) |
0.5 (1.00) |
19p loss | 0 (0%) | 493 |
0.132 (1.00) |
0.0186 (1.00) |
0.281 (1.00) |
0.369 (1.00) |
0.0378 (1.00) |
0.0215 (1.00) |
0.00778 (1.00) |
0.00503 (1.00) |
0.0073 (1.00) |
0.00558 (1.00) |
P value = 3.29e-06 (Fisher's exact test), Q value = 0.0012
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
1Q GAIN CNV | 9 | 11 | 1 |
1Q GAIN WILD-TYPE | 25 | 374 | 77 |
P value = 1.85e-05 (Fisher's exact test), Q value = 0.0066
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
4P GAIN CNV | 4 | 0 | 0 |
4P GAIN WILD-TYPE | 30 | 385 | 78 |
P value = 1.85e-05 (Fisher's exact test), Q value = 0.0066
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
4Q GAIN CNV | 4 | 0 | 0 |
4Q GAIN WILD-TYPE | 30 | 385 | 78 |
P value = 6.97e-20 (Fisher's exact test), Q value = 2.8e-17
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
5P GAIN CNV | 16 | 1 | 0 |
5P GAIN WILD-TYPE | 18 | 384 | 78 |
P value = 0.000873 (Fisher's exact test), Q value = 0.24
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 72 | 275 |
5P GAIN CNV | 12 | 2 | 3 |
5P GAIN WILD-TYPE | 138 | 70 | 272 |
P value = 0.000538 (Fisher's exact test), Q value = 0.16
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 89 | 199 | 130 | 65 |
5P GAIN CNV | 0 | 5 | 12 | 0 |
5P GAIN WILD-TYPE | 89 | 194 | 118 | 65 |
P value = 0.000541 (Fisher's exact test), Q value = 0.16
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 168 | 142 |
5P GAIN CNV | 10 | 6 | 0 |
5P GAIN WILD-TYPE | 104 | 162 | 142 |
P value = 0.00075 (Fisher's exact test), Q value = 0.21
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 167 | 117 | 140 |
5P GAIN CNV | 6 | 10 | 0 |
5P GAIN WILD-TYPE | 161 | 107 | 140 |
P value = 2.6e-18 (Fisher's exact test), Q value = 1e-15
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
5Q GAIN CNV | 14 | 0 | 0 |
5Q GAIN WILD-TYPE | 20 | 385 | 78 |
P value = 4.02e-05 (Fisher's exact test), Q value = 0.014
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 72 | 275 |
5Q GAIN CNV | 12 | 1 | 1 |
5Q GAIN WILD-TYPE | 138 | 71 | 274 |
P value = 0.000164 (Fisher's exact test), Q value = 0.052
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 148 | 59 | 115 | 161 |
5Q GAIN CNV | 12 | 0 | 0 | 2 |
5Q GAIN WILD-TYPE | 136 | 59 | 115 | 159 |
P value = 4.71e-05 (Fisher's exact test), Q value = 0.016
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 89 | 199 | 130 | 65 |
5Q GAIN CNV | 0 | 2 | 12 | 0 |
5Q GAIN WILD-TYPE | 89 | 197 | 118 | 65 |
P value = 0.000106 (Fisher's exact test), Q value = 0.034
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 168 | 142 |
5Q GAIN CNV | 10 | 3 | 0 |
5Q GAIN WILD-TYPE | 104 | 165 | 142 |
P value = 0.000119 (Fisher's exact test), Q value = 0.038
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 167 | 117 | 140 |
5Q GAIN CNV | 3 | 10 | 0 |
5Q GAIN WILD-TYPE | 164 | 107 | 140 |
P value = 1.59e-22 (Fisher's exact test), Q value = 6.4e-20
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
7P GAIN CNV | 17 | 0 | 0 |
7P GAIN WILD-TYPE | 17 | 385 | 78 |
P value = 0.000169 (Fisher's exact test), Q value = 0.053
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 72 | 275 |
7P GAIN CNV | 12 | 3 | 2 |
7P GAIN WILD-TYPE | 138 | 69 | 273 |
P value = 0.00041 (Fisher's exact test), Q value = 0.12
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 148 | 59 | 115 | 161 |
7P GAIN CNV | 13 | 0 | 1 | 2 |
7P GAIN WILD-TYPE | 135 | 59 | 114 | 159 |
P value = 6.05e-05 (Fisher's exact test), Q value = 0.02
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 89 | 199 | 130 | 65 |
7P GAIN CNV | 1 | 2 | 13 | 0 |
7P GAIN WILD-TYPE | 88 | 197 | 117 | 65 |
P value = 0.000272 (Fisher's exact test), Q value = 0.083
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 168 | 142 |
7P GAIN CNV | 12 | 4 | 1 |
7P GAIN WILD-TYPE | 102 | 164 | 141 |
P value = 0.000418 (Fisher's exact test), Q value = 0.12
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 167 | 117 | 140 |
7P GAIN CNV | 4 | 12 | 1 |
7P GAIN WILD-TYPE | 163 | 105 | 139 |
P value = 1.76e-23 (Fisher's exact test), Q value = 7.1e-21
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
7Q GAIN CNV | 18 | 0 | 1 |
7Q GAIN WILD-TYPE | 16 | 385 | 77 |
P value = 3.65e-05 (Fisher's exact test), Q value = 0.012
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 72 | 275 |
7Q GAIN CNV | 14 | 3 | 2 |
7Q GAIN WILD-TYPE | 136 | 69 | 273 |
P value = 5.06e-05 (Fisher's exact test), Q value = 0.017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 148 | 59 | 115 | 161 |
7Q GAIN CNV | 15 | 0 | 1 | 2 |
7Q GAIN WILD-TYPE | 133 | 59 | 114 | 159 |
P value = 6.18e-06 (Fisher's exact test), Q value = 0.0022
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 89 | 199 | 130 | 65 |
7Q GAIN CNV | 1 | 2 | 15 | 0 |
7Q GAIN WILD-TYPE | 88 | 197 | 115 | 65 |
P value = 0.000289 (Fisher's exact test), Q value = 0.088
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 127 | 148 | 149 |
7Q GAIN CNV | 14 | 2 | 3 |
7Q GAIN WILD-TYPE | 113 | 146 | 146 |
P value = 2.87e-05 (Fisher's exact test), Q value = 0.0099
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 168 | 142 |
7Q GAIN CNV | 14 | 4 | 1 |
7Q GAIN WILD-TYPE | 100 | 164 | 141 |
P value = 2e-04 (Fisher's exact test), Q value = 0.062
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 125 | 157 | 142 |
7Q GAIN CNV | 14 | 2 | 3 |
7Q GAIN WILD-TYPE | 111 | 155 | 139 |
P value = 3.59e-05 (Fisher's exact test), Q value = 0.012
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 167 | 117 | 140 |
7Q GAIN CNV | 4 | 14 | 1 |
7Q GAIN WILD-TYPE | 163 | 103 | 139 |
P value = 0.000204 (Fisher's exact test), Q value = 0.063
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
11Q GAIN CNV | 3 | 0 | 1 |
11Q GAIN WILD-TYPE | 31 | 385 | 77 |
P value = 1.03e-12 (Fisher's exact test), Q value = 4.1e-10
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
12P GAIN CNV | 10 | 0 | 1 |
12P GAIN WILD-TYPE | 24 | 385 | 77 |
P value = 2.87e-06 (Fisher's exact test), Q value = 0.0011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 72 | 275 |
12P GAIN CNV | 11 | 0 | 0 |
12P GAIN WILD-TYPE | 139 | 72 | 275 |
P value = 1.6e-05 (Fisher's exact test), Q value = 0.0058
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 148 | 59 | 115 | 161 |
12P GAIN CNV | 11 | 0 | 0 | 0 |
12P GAIN WILD-TYPE | 137 | 59 | 115 | 161 |
P value = 2.12e-06 (Fisher's exact test), Q value = 0.00079
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 89 | 199 | 130 | 65 |
12P GAIN CNV | 0 | 0 | 11 | 0 |
12P GAIN WILD-TYPE | 89 | 199 | 119 | 65 |
P value = 5.19e-05 (Fisher's exact test), Q value = 0.017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 127 | 148 | 149 |
12P GAIN CNV | 10 | 0 | 1 |
12P GAIN WILD-TYPE | 117 | 148 | 148 |
P value = 1.7e-05 (Fisher's exact test), Q value = 0.0061
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 168 | 142 |
12P GAIN CNV | 10 | 1 | 0 |
12P GAIN WILD-TYPE | 104 | 167 | 142 |
P value = 3.43e-05 (Fisher's exact test), Q value = 0.012
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 125 | 157 | 142 |
12P GAIN CNV | 10 | 0 | 1 |
12P GAIN WILD-TYPE | 115 | 157 | 141 |
P value = 2e-05 (Fisher's exact test), Q value = 0.007
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 167 | 117 | 140 |
12P GAIN CNV | 1 | 10 | 0 |
12P GAIN WILD-TYPE | 166 | 107 | 140 |
P value = 1.27e-12 (Fisher's exact test), Q value = 5e-10
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
12Q GAIN CNV | 10 | 0 | 2 |
12Q GAIN WILD-TYPE | 24 | 385 | 76 |
P value = 6.48e-07 (Fisher's exact test), Q value = 0.00025
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 72 | 275 |
12Q GAIN CNV | 12 | 0 | 0 |
12Q GAIN WILD-TYPE | 138 | 72 | 275 |
P value = 4.46e-06 (Fisher's exact test), Q value = 0.0017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 148 | 59 | 115 | 161 |
12Q GAIN CNV | 12 | 0 | 0 | 0 |
12Q GAIN WILD-TYPE | 136 | 59 | 115 | 161 |
P value = 6.49e-07 (Fisher's exact test), Q value = 0.00025
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 89 | 199 | 130 | 65 |
12Q GAIN CNV | 0 | 0 | 12 | 0 |
12Q GAIN WILD-TYPE | 89 | 199 | 118 | 65 |
P value = 1.64e-05 (Fisher's exact test), Q value = 0.0059
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 127 | 148 | 149 |
12Q GAIN CNV | 11 | 0 | 1 |
12Q GAIN WILD-TYPE | 116 | 148 | 148 |
P value = 4.85e-06 (Fisher's exact test), Q value = 0.0018
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 168 | 142 |
12Q GAIN CNV | 11 | 1 | 0 |
12Q GAIN WILD-TYPE | 103 | 167 | 142 |
P value = 6.11e-06 (Fisher's exact test), Q value = 0.0022
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 125 | 157 | 142 |
12Q GAIN CNV | 11 | 0 | 1 |
12Q GAIN WILD-TYPE | 114 | 157 | 141 |
P value = 5.76e-06 (Fisher's exact test), Q value = 0.0021
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 167 | 117 | 140 |
12Q GAIN CNV | 1 | 11 | 0 |
12Q GAIN WILD-TYPE | 166 | 106 | 140 |
P value = 0.000294 (Fisher's exact test), Q value = 0.089
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
13Q GAIN CNV | 3 | 0 | 0 |
13Q GAIN WILD-TYPE | 31 | 385 | 78 |
P value = 5.02e-09 (Fisher's exact test), Q value = 1.9e-06
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
14Q GAIN CNV | 7 | 0 | 1 |
14Q GAIN WILD-TYPE | 27 | 385 | 77 |
P value = 8.76e-05 (Fisher's exact test), Q value = 0.028
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 72 | 275 |
14Q GAIN CNV | 8 | 0 | 0 |
14Q GAIN WILD-TYPE | 142 | 72 | 275 |
P value = 0.000325 (Fisher's exact test), Q value = 0.098
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 148 | 59 | 115 | 161 |
14Q GAIN CNV | 8 | 0 | 0 | 0 |
14Q GAIN WILD-TYPE | 140 | 59 | 115 | 161 |
P value = 0.000148 (Fisher's exact test), Q value = 0.047
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 89 | 199 | 130 | 65 |
14Q GAIN CNV | 0 | 0 | 8 | 0 |
14Q GAIN WILD-TYPE | 89 | 199 | 122 | 65 |
P value = 5.51e-14 (Fisher's exact test), Q value = 2.2e-11
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
16P GAIN CNV | 11 | 0 | 1 |
16P GAIN WILD-TYPE | 23 | 385 | 77 |
P value = 3.21e-05 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 72 | 275 |
16P GAIN CNV | 10 | 2 | 0 |
16P GAIN WILD-TYPE | 140 | 70 | 275 |
P value = 0.000132 (Fisher's exact test), Q value = 0.042
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 148 | 59 | 115 | 161 |
16P GAIN CNV | 11 | 0 | 0 | 1 |
16P GAIN WILD-TYPE | 137 | 59 | 115 | 160 |
P value = 2.69e-05 (Fisher's exact test), Q value = 0.0093
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 89 | 199 | 130 | 65 |
16P GAIN CNV | 0 | 1 | 11 | 0 |
16P GAIN WILD-TYPE | 89 | 198 | 119 | 65 |
P value = 0.000214 (Fisher's exact test), Q value = 0.066
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 127 | 148 | 149 |
16P GAIN CNV | 10 | 0 | 2 |
16P GAIN WILD-TYPE | 117 | 148 | 147 |
P value = 5.88e-05 (Fisher's exact test), Q value = 0.019
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 168 | 142 |
16P GAIN CNV | 10 | 2 | 0 |
16P GAIN WILD-TYPE | 104 | 166 | 142 |
P value = 8.28e-05 (Fisher's exact test), Q value = 0.027
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 125 | 157 | 142 |
16P GAIN CNV | 10 | 0 | 2 |
16P GAIN WILD-TYPE | 115 | 157 | 140 |
P value = 8.35e-05 (Fisher's exact test), Q value = 0.027
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 167 | 117 | 140 |
16P GAIN CNV | 2 | 10 | 0 |
16P GAIN WILD-TYPE | 165 | 107 | 140 |
P value = 5.67e-13 (Fisher's exact test), Q value = 2.3e-10
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
16Q GAIN CNV | 10 | 0 | 0 |
16Q GAIN WILD-TYPE | 24 | 385 | 78 |
P value = 0.000224 (Fisher's exact test), Q value = 0.069
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 72 | 275 |
16Q GAIN CNV | 8 | 2 | 0 |
16Q GAIN WILD-TYPE | 142 | 70 | 275 |
P value = 0.00039 (Fisher's exact test), Q value = 0.12
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 89 | 199 | 130 | 65 |
16Q GAIN CNV | 0 | 1 | 9 | 0 |
16Q GAIN WILD-TYPE | 89 | 198 | 121 | 65 |
P value = 0.000547 (Fisher's exact test), Q value = 0.16
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 168 | 142 |
16Q GAIN CNV | 8 | 2 | 0 |
16Q GAIN WILD-TYPE | 106 | 166 | 142 |
P value = 0.000713 (Fisher's exact test), Q value = 0.2
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 125 | 157 | 142 |
16Q GAIN CNV | 8 | 0 | 2 |
16Q GAIN WILD-TYPE | 117 | 157 | 140 |
P value = 0.000758 (Fisher's exact test), Q value = 0.21
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 167 | 117 | 140 |
16Q GAIN CNV | 2 | 8 | 0 |
16Q GAIN WILD-TYPE | 165 | 109 | 140 |
P value = 2e-09 (Fisher's exact test), Q value = 7.8e-07
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
17P GAIN CNV | 9 | 2 | 1 |
17P GAIN WILD-TYPE | 25 | 383 | 77 |
P value = 6.48e-07 (Fisher's exact test), Q value = 0.00025
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 72 | 275 |
17P GAIN CNV | 12 | 0 | 0 |
17P GAIN WILD-TYPE | 138 | 72 | 275 |
P value = 4.46e-06 (Fisher's exact test), Q value = 0.0017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 148 | 59 | 115 | 161 |
17P GAIN CNV | 12 | 0 | 0 | 0 |
17P GAIN WILD-TYPE | 136 | 59 | 115 | 161 |
P value = 6.49e-07 (Fisher's exact test), Q value = 0.00025
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 89 | 199 | 130 | 65 |
17P GAIN CNV | 0 | 0 | 12 | 0 |
17P GAIN WILD-TYPE | 89 | 199 | 118 | 65 |
P value = 5.19e-05 (Fisher's exact test), Q value = 0.017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 127 | 148 | 149 |
17P GAIN CNV | 10 | 0 | 1 |
17P GAIN WILD-TYPE | 117 | 148 | 148 |
P value = 1.7e-05 (Fisher's exact test), Q value = 0.0061
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 168 | 142 |
17P GAIN CNV | 10 | 1 | 0 |
17P GAIN WILD-TYPE | 104 | 167 | 142 |
P value = 3.43e-05 (Fisher's exact test), Q value = 0.012
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 125 | 157 | 142 |
17P GAIN CNV | 10 | 0 | 1 |
17P GAIN WILD-TYPE | 115 | 157 | 141 |
P value = 2e-05 (Fisher's exact test), Q value = 0.007
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 167 | 117 | 140 |
17P GAIN CNV | 1 | 10 | 0 |
17P GAIN WILD-TYPE | 166 | 107 | 140 |
P value = 3.83e-09 (Fisher's exact test), Q value = 1.5e-06
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
17Q GAIN CNV | 9 | 2 | 2 |
17Q GAIN WILD-TYPE | 25 | 383 | 76 |
P value = 3.73e-07 (Fisher's exact test), Q value = 0.00014
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 72 | 275 |
17Q GAIN CNV | 13 | 0 | 0 |
17Q GAIN WILD-TYPE | 137 | 72 | 275 |
P value = 1.51e-06 (Fisher's exact test), Q value = 0.00057
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 148 | 59 | 115 | 161 |
17Q GAIN CNV | 13 | 0 | 0 | 0 |
17Q GAIN WILD-TYPE | 135 | 59 | 115 | 161 |
P value = 1.6e-07 (Fisher's exact test), Q value = 6.2e-05
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 89 | 199 | 130 | 65 |
17Q GAIN CNV | 0 | 0 | 13 | 0 |
17Q GAIN WILD-TYPE | 89 | 199 | 117 | 65 |
P value = 1.64e-05 (Fisher's exact test), Q value = 0.0059
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 127 | 148 | 149 |
17Q GAIN CNV | 11 | 0 | 1 |
17Q GAIN WILD-TYPE | 116 | 148 | 148 |
P value = 4.85e-06 (Fisher's exact test), Q value = 0.0018
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 168 | 142 |
17Q GAIN CNV | 11 | 1 | 0 |
17Q GAIN WILD-TYPE | 103 | 167 | 142 |
P value = 6.11e-06 (Fisher's exact test), Q value = 0.0022
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 125 | 157 | 142 |
17Q GAIN CNV | 11 | 0 | 1 |
17Q GAIN WILD-TYPE | 114 | 157 | 141 |
P value = 5.76e-06 (Fisher's exact test), Q value = 0.0021
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 167 | 117 | 140 |
17Q GAIN CNV | 1 | 11 | 0 |
17Q GAIN WILD-TYPE | 166 | 106 | 140 |
P value = 1.85e-05 (Fisher's exact test), Q value = 0.0066
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
19P GAIN CNV | 4 | 0 | 0 |
19P GAIN WILD-TYPE | 30 | 385 | 78 |
P value = 1.12e-06 (Fisher's exact test), Q value = 0.00042
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
19Q GAIN CNV | 5 | 0 | 0 |
19Q GAIN WILD-TYPE | 29 | 385 | 78 |
P value = 1.11e-11 (Fisher's exact test), Q value = 4.4e-09
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
20P GAIN CNV | 9 | 0 | 0 |
20P GAIN WILD-TYPE | 25 | 385 | 78 |
P value = 0.000706 (Fisher's exact test), Q value = 0.2
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 72 | 275 |
20P GAIN CNV | 7 | 2 | 0 |
20P GAIN WILD-TYPE | 143 | 70 | 275 |
P value = 1.11e-11 (Fisher's exact test), Q value = 4.4e-09
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
20Q GAIN CNV | 9 | 0 | 0 |
20Q GAIN WILD-TYPE | 25 | 385 | 78 |
P value = 0.000706 (Fisher's exact test), Q value = 0.2
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 72 | 275 |
20Q GAIN CNV | 7 | 2 | 0 |
20Q GAIN WILD-TYPE | 143 | 70 | 275 |
P value = 0.000294 (Fisher's exact test), Q value = 0.089
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
1P LOSS CNV | 3 | 0 | 0 |
1P LOSS WILD-TYPE | 31 | 385 | 78 |
P value = 5.02e-09 (Fisher's exact test), Q value = 1.9e-06
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
2P LOSS CNV | 7 | 0 | 1 |
2P LOSS WILD-TYPE | 27 | 385 | 77 |
P value = 8.76e-05 (Fisher's exact test), Q value = 0.028
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 72 | 275 |
2P LOSS CNV | 8 | 0 | 0 |
2P LOSS WILD-TYPE | 142 | 72 | 275 |
P value = 0.000325 (Fisher's exact test), Q value = 0.098
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 148 | 59 | 115 | 161 |
2P LOSS CNV | 8 | 0 | 0 | 0 |
2P LOSS WILD-TYPE | 140 | 59 | 115 | 161 |
P value = 0.000148 (Fisher's exact test), Q value = 0.047
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 89 | 199 | 130 | 65 |
2P LOSS CNV | 0 | 0 | 8 | 0 |
2P LOSS WILD-TYPE | 89 | 199 | 122 | 65 |
P value = 5.53e-05 (Fisher's exact test), Q value = 0.018
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 127 | 148 | 149 |
2P LOSS CNV | 8 | 0 | 0 |
2P LOSS WILD-TYPE | 119 | 148 | 149 |
P value = 2.27e-05 (Fisher's exact test), Q value = 0.0079
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 168 | 142 |
2P LOSS CNV | 8 | 0 | 0 |
2P LOSS WILD-TYPE | 106 | 168 | 142 |
P value = 4.85e-05 (Fisher's exact test), Q value = 0.016
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 125 | 157 | 142 |
2P LOSS CNV | 8 | 0 | 0 |
2P LOSS WILD-TYPE | 117 | 157 | 142 |
P value = 2.81e-05 (Fisher's exact test), Q value = 0.0097
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 167 | 117 | 140 |
2P LOSS CNV | 0 | 8 | 0 |
2P LOSS WILD-TYPE | 167 | 109 | 140 |
P value = 3.78e-09 (Fisher's exact test), Q value = 1.5e-06
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
2Q LOSS CNV | 7 | 0 | 0 |
2Q LOSS WILD-TYPE | 27 | 385 | 78 |
P value = 0.000364 (Fisher's exact test), Q value = 0.11
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 72 | 275 |
2Q LOSS CNV | 7 | 0 | 0 |
2Q LOSS WILD-TYPE | 143 | 72 | 275 |
P value = 0.000534 (Fisher's exact test), Q value = 0.16
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 89 | 199 | 130 | 65 |
2Q LOSS CNV | 0 | 0 | 7 | 0 |
2Q LOSS WILD-TYPE | 89 | 199 | 123 | 65 |
P value = 0.000192 (Fisher's exact test), Q value = 0.06
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 127 | 148 | 149 |
2Q LOSS CNV | 7 | 0 | 0 |
2Q LOSS WILD-TYPE | 120 | 148 | 149 |
P value = 8.85e-05 (Fisher's exact test), Q value = 0.029
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 168 | 142 |
2Q LOSS CNV | 7 | 0 | 0 |
2Q LOSS WILD-TYPE | 107 | 168 | 142 |
P value = 0.000171 (Fisher's exact test), Q value = 0.054
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 125 | 157 | 142 |
2Q LOSS CNV | 7 | 0 | 0 |
2Q LOSS WILD-TYPE | 118 | 157 | 142 |
P value = 0.000107 (Fisher's exact test), Q value = 0.034
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 167 | 117 | 140 |
2Q LOSS CNV | 0 | 7 | 0 |
2Q LOSS WILD-TYPE | 167 | 110 | 140 |
P value = 0.000294 (Fisher's exact test), Q value = 0.089
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
3Q LOSS CNV | 3 | 0 | 0 |
3Q LOSS WILD-TYPE | 31 | 385 | 78 |
P value = 1.85e-05 (Fisher's exact test), Q value = 0.0066
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
8P LOSS CNV | 4 | 0 | 0 |
8P LOSS WILD-TYPE | 30 | 385 | 78 |
P value = 1.85e-05 (Fisher's exact test), Q value = 0.0066
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
8Q LOSS CNV | 4 | 0 | 0 |
8Q LOSS WILD-TYPE | 30 | 385 | 78 |
P value = 1.08e-11 (Fisher's exact test), Q value = 4.3e-09
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
9P LOSS CNV | 10 | 1 | 1 |
9P LOSS WILD-TYPE | 24 | 384 | 77 |
P value = 1.58e-13 (Fisher's exact test), Q value = 6.3e-11
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
9Q LOSS CNV | 13 | 3 | 1 |
9Q LOSS WILD-TYPE | 21 | 382 | 77 |
P value = 6.62e-08 (Fisher's exact test), Q value = 2.6e-05
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
10P LOSS CNV | 6 | 0 | 0 |
10P LOSS WILD-TYPE | 28 | 385 | 78 |
P value = 1.12e-06 (Fisher's exact test), Q value = 0.00042
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
10Q LOSS CNV | 5 | 0 | 0 |
10Q LOSS WILD-TYPE | 29 | 385 | 78 |
P value = 7.74e-08 (Fisher's exact test), Q value = 3e-05
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
11P LOSS CNV | 6 | 0 | 1 |
11P LOSS WILD-TYPE | 28 | 385 | 77 |
P value = 3.24e-06 (Fisher's exact test), Q value = 0.0012
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
11Q LOSS CNV | 6 | 2 | 1 |
11Q LOSS WILD-TYPE | 28 | 383 | 77 |
P value = 0.000464 (Fisher's exact test), Q value = 0.14
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
15Q LOSS CNV | 4 | 2 | 1 |
15Q LOSS WILD-TYPE | 30 | 383 | 77 |
P value = 0.000534 (Fisher's exact test), Q value = 0.16
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 89 | 199 | 130 | 65 |
15Q LOSS CNV | 0 | 0 | 7 | 0 |
15Q LOSS WILD-TYPE | 89 | 199 | 123 | 65 |
P value = 0.000664 (Fisher's exact test), Q value = 0.19
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 127 | 148 | 149 |
15Q LOSS CNV | 6 | 0 | 0 |
15Q LOSS WILD-TYPE | 121 | 148 | 149 |
P value = 0.000342 (Fisher's exact test), Q value = 0.1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 168 | 142 |
15Q LOSS CNV | 6 | 0 | 0 |
15Q LOSS WILD-TYPE | 108 | 168 | 142 |
P value = 0.000602 (Fisher's exact test), Q value = 0.17
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 125 | 157 | 142 |
15Q LOSS CNV | 6 | 0 | 0 |
15Q LOSS WILD-TYPE | 119 | 157 | 142 |
P value = 0.000402 (Fisher's exact test), Q value = 0.12
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 167 | 117 | 140 |
15Q LOSS CNV | 0 | 6 | 0 |
15Q LOSS WILD-TYPE | 167 | 111 | 140 |
P value = 0.000204 (Fisher's exact test), Q value = 0.063
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
18P LOSS CNV | 3 | 0 | 1 |
18P LOSS WILD-TYPE | 31 | 385 | 77 |
P value = 0.000204 (Fisher's exact test), Q value = 0.063
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
18Q LOSS CNV | 3 | 0 | 1 |
18Q LOSS WILD-TYPE | 31 | 385 | 77 |
P value = 0.000192 (Fisher's exact test), Q value = 0.06
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
21Q LOSS CNV | 4 | 1 | 1 |
21Q LOSS WILD-TYPE | 30 | 384 | 77 |
P value = 6.79e-58 (Fisher's exact test), Q value = 2.8e-55
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 34 | 385 | 78 |
22Q LOSS CNV | 8 | 0 | 58 |
22Q LOSS WILD-TYPE | 26 | 385 | 20 |
P value = 4.45e-05 (Fisher's exact test), Q value = 0.015
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 150 | 72 | 275 |
22Q LOSS CNV | 36 | 7 | 23 |
22Q LOSS WILD-TYPE | 114 | 65 | 252 |
P value = 2.26e-11 (Fisher's exact test), Q value = 8.9e-09
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 148 | 59 | 115 | 161 |
22Q LOSS CNV | 36 | 5 | 20 | 1 |
22Q LOSS WILD-TYPE | 112 | 54 | 95 | 160 |
P value = 2.59e-11 (Fisher's exact test), Q value = 1e-08
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 89 | 199 | 130 | 65 |
22Q LOSS CNV | 17 | 6 | 36 | 3 |
22Q LOSS WILD-TYPE | 72 | 193 | 94 | 62 |
P value = 4.33e-05 (Fisher's exact test), Q value = 0.015
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 127 | 148 | 149 |
22Q LOSS CNV | 31 | 14 | 10 |
22Q LOSS WILD-TYPE | 96 | 134 | 139 |
P value = 9.51e-06 (Fisher's exact test), Q value = 0.0034
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 114 | 168 | 142 |
22Q LOSS CNV | 30 | 11 | 14 |
22Q LOSS WILD-TYPE | 84 | 157 | 128 |
P value = 3.93e-05 (Fisher's exact test), Q value = 0.013
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 125 | 157 | 142 |
22Q LOSS CNV | 31 | 14 | 10 |
22Q LOSS WILD-TYPE | 94 | 143 | 132 |
P value = 4.85e-06 (Fisher's exact test), Q value = 0.0018
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 167 | 117 | 140 |
22Q LOSS CNV | 9 | 30 | 16 |
22Q LOSS WILD-TYPE | 158 | 87 | 124 |
-
Mutation data file = broad_values_by_arm.mutsig.cluster.txt
-
Molecular subtypes file = THCA-TP.transferedmergedcluster.txt
-
Number of patients = 497
-
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.
This is an experimental feature. The full results of the analysis summarized in this report can be downloaded from the TCGA Data Coordination Center.