This pipeline computes the correlation between significant arm-level copy number variations (cnvs) and molecular subtypes.
Testing the association between copy number variation 50 arm-level events and 8 molecular subtypes across 80 patients, 95 significant findings detected with P value < 0.05 and Q value < 0.25.
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2p gain cnv correlated to 'CN_CNMF' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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2q gain cnv correlated to 'CN_CNMF' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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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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6p 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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6q gain cnv correlated to 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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8p 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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8q 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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11p gain cnv correlated to 'CN_CNMF' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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11q gain cnv correlated to 'MIRSEQ_MATURE_CHIERARCHICAL'.
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12p gain cnv correlated to 'MRNASEQ_CHIERARCHICAL'.
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12q gain cnv correlated to 'MRNASEQ_CHIERARCHICAL'.
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13q gain cnv correlated to 'CN_CNMF', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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17p gain cnv correlated to 'CN_CNMF' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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17q gain cnv correlated to 'CN_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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20q gain cnv correlated to 'MRNASEQ_CNMF'.
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21q gain cnv correlated to 'CN_CNMF' and 'MRNASEQ_CHIERARCHICAL'.
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22q gain cnv correlated to 'MIRSEQ_MATURE_CNMF' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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xp gain cnv correlated to 'METHLYATION_CNMF' and 'MIRSEQ_MATURE_CNMF'.
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xq gain cnv correlated to 'MRNASEQ_CHIERARCHICAL' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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1p loss cnv correlated to 'MIRSEQ_MATURE_CNMF' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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1q loss cnv correlated to 'MIRSEQ_CHIERARCHICAL' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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3p 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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3q 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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5q loss cnv correlated to 'MIRSEQ_MATURE_CNMF'.
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6q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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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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16q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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xp loss cnv correlated to 'MIRSEQ_MATURE_CNMF' and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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xq loss cnv correlated to 'METHLYATION_CNMF', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
Clinical Features |
CN CNMF |
METHLYATION CNMF |
MRNASEQ CNMF |
MRNASEQ CHIERARCHICAL |
MIRSEQ CNMF |
MIRSEQ CHIERARCHICAL |
MIRSEQ MATURE CNMF |
MIRSEQ MATURE CHIERARCHICAL |
||
nCNV (%) | nWild-Type | Fisher's exact test | 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 | |
6p gain | 38 (48%) | 42 |
0.0416 (0.179) |
0.0067 (0.0496) |
0.00034 (0.00389) |
0.00013 (0.00168) |
2e-05 (0.000308) |
1e-05 (0.000174) |
0.00027 (0.00318) |
1e-05 (0.000174) |
8p gain | 39 (49%) | 41 |
1e-05 (0.000174) |
0.00011 (0.00147) |
0.00108 (0.0105) |
6e-05 (0.000857) |
0.00275 (0.0239) |
0.00052 (0.00562) |
0.0316 (0.154) |
0.00826 (0.056) |
8q gain | 53 (66%) | 27 |
1e-05 (0.000174) |
2e-05 (0.000308) |
0.00017 (0.00212) |
1e-05 (0.000174) |
2e-05 (0.000308) |
1e-05 (0.000174) |
0.00995 (0.0643) |
6e-05 (0.000857) |
3p loss | 43 (54%) | 37 |
1e-05 (0.000174) |
1e-05 (0.000174) |
1e-05 (0.000174) |
1e-05 (0.000174) |
1e-05 (0.000174) |
1e-05 (0.000174) |
1e-05 (0.000174) |
1e-05 (0.000174) |
3q loss | 43 (54%) | 37 |
1e-05 (0.000174) |
1e-05 (0.000174) |
1e-05 (0.000174) |
1e-05 (0.000174) |
1e-05 (0.000174) |
1e-05 (0.000174) |
1e-05 (0.000174) |
1e-05 (0.000174) |
6q gain | 16 (20%) | 64 |
0.604 (0.781) |
0.0144 (0.0822) |
0.0191 (0.105) |
0.00101 (0.0101) |
0.00089 (0.00913) |
0.0002 (0.00242) |
0.0101 (0.0643) |
0.00089 (0.00913) |
6q loss | 17 (21%) | 63 |
1e-05 (0.000174) |
0.0105 (0.0658) |
0.19 (0.412) |
0.00465 (0.0365) |
0.12 (0.341) |
0.228 (0.452) |
0.0337 (0.159) |
0.00384 (0.0307) |
13q gain | 6 (8%) | 74 |
0.0251 (0.132) |
0.683 (0.83) |
0.878 (0.942) |
0.751 (0.88) |
0.914 (0.964) |
0.519 (0.705) |
0.00156 (0.0139) |
0.00777 (0.0553) |
17q gain | 9 (11%) | 71 |
0.00146 (0.0133) |
0.223 (0.45) |
0.33 (0.531) |
0.306 (0.513) |
0.532 (0.719) |
0.0283 (0.145) |
0.281 (0.496) |
0.0383 (0.169) |
16q loss | 16 (20%) | 64 |
0.0218 (0.116) |
0.0277 (0.144) |
0.154 (0.377) |
0.0131 (0.0772) |
0.195 (0.415) |
0.126 (0.346) |
0.0692 (0.255) |
0.161 (0.385) |
xq loss | 13 (16%) | 67 |
0.273 (0.496) |
0.0155 (0.0862) |
0.218 (0.45) |
0.146 (0.366) |
0.649 (0.804) |
0.384 (0.577) |
0.00788 (0.0553) |
0.00313 (0.0256) |
2p gain | 10 (12%) | 70 |
0.0286 (0.145) |
0.549 (0.737) |
0.0591 (0.228) |
0.117 (0.341) |
0.224 (0.45) |
0.851 (0.92) |
0.706 (0.843) |
0.00312 (0.0256) |
2q gain | 8 (10%) | 72 |
0.0107 (0.0658) |
0.222 (0.45) |
0.0538 (0.222) |
0.111 (0.332) |
0.0593 (0.228) |
0.194 (0.415) |
0.298 (0.506) |
8e-05 (0.0011) |
11p gain | 10 (12%) | 70 |
0.00824 (0.056) |
0.163 (0.385) |
0.73 (0.867) |
0.383 (0.577) |
0.646 (0.804) |
0.309 (0.513) |
0.134 (0.358) |
0.00638 (0.0482) |
17p gain | 8 (10%) | 72 |
0.00035 (0.00389) |
0.26 (0.487) |
0.457 (0.653) |
0.217 (0.45) |
0.602 (0.781) |
0.058 (0.228) |
0.189 (0.412) |
0.0396 (0.172) |
21q gain | 14 (18%) | 66 |
0.033 (0.157) |
0.168 (0.392) |
0.0695 (0.255) |
0.0135 (0.0785) |
0.373 (0.569) |
0.296 (0.505) |
0.151 (0.374) |
0.106 (0.332) |
22q gain | 5 (6%) | 75 |
0.134 (0.358) |
0.123 (0.344) |
0.107 (0.332) |
0.0718 (0.261) |
0.128 (0.346) |
0.246 (0.469) |
0.00313 (0.0256) |
0.033 (0.157) |
xp gain | 10 (12%) | 70 |
0.19 (0.412) |
0.0363 (0.168) |
0.796 (0.886) |
0.14 (0.358) |
0.0533 (0.222) |
0.374 (0.569) |
0.0369 (0.168) |
0.0985 (0.331) |
xq gain | 9 (11%) | 71 |
0.26 (0.487) |
0.111 (0.332) |
0.629 (0.789) |
0.02 (0.108) |
0.0551 (0.223) |
0.102 (0.332) |
0.0984 (0.331) |
0.0316 (0.154) |
1p loss | 19 (24%) | 61 |
0.303 (0.512) |
0.262 (0.487) |
0.0785 (0.283) |
0.663 (0.813) |
0.967 (1.00) |
0.279 (0.496) |
0.0149 (0.0837) |
0.0302 (0.151) |
1q loss | 3 (4%) | 77 |
0.382 (0.577) |
0.179 (0.406) |
0.162 (0.385) |
0.325 (0.531) |
0.192 (0.414) |
0.0457 (0.193) |
0.167 (0.392) |
0.012 (0.0714) |
xp loss | 12 (15%) | 68 |
0.185 (0.412) |
0.0551 (0.223) |
0.406 (0.603) |
0.265 (0.491) |
0.927 (0.971) |
0.58 (0.769) |
0.0368 (0.168) |
0.0112 (0.0678) |
4p gain | 7 (9%) | 73 |
0.00143 (0.0133) |
0.245 (0.469) |
0.143 (0.361) |
0.12 (0.341) |
0.329 (0.531) |
0.368 (0.568) |
0.326 (0.531) |
0.433 (0.637) |
4q gain | 4 (5%) | 76 |
0.00575 (0.0442) |
0.309 (0.513) |
0.0994 (0.331) |
0.345 (0.542) |
0.628 (0.789) |
0.826 (0.901) |
0.789 (0.883) |
0.628 (0.789) |
11q gain | 10 (12%) | 70 |
0.099 (0.331) |
0.727 (0.865) |
1 (1.00) |
0.829 (0.901) |
0.699 (0.84) |
0.116 (0.341) |
0.0942 (0.328) |
0.0383 (0.169) |
12p gain | 3 (4%) | 77 |
0.141 (0.358) |
0.18 (0.406) |
0.105 (0.332) |
0.0101 (0.0643) |
0.091 (0.322) |
0.271 (0.496) |
0.11 (0.332) |
0.14 (0.358) |
12q gain | 3 (4%) | 77 |
0.14 (0.358) |
0.182 (0.406) |
0.105 (0.332) |
0.00919 (0.0613) |
0.0903 (0.322) |
0.274 (0.496) |
0.109 (0.332) |
0.138 (0.358) |
20q gain | 9 (11%) | 71 |
0.0691 (0.255) |
0.616 (0.788) |
0.0423 (0.18) |
0.0578 (0.228) |
0.685 (0.831) |
0.156 (0.379) |
0.238 (0.466) |
0.427 (0.63) |
5q loss | 3 (4%) | 77 |
0.788 (0.883) |
0.119 (0.341) |
0.246 (0.469) |
0.17 (0.395) |
0.455 (0.652) |
0.871 (0.939) |
0.0385 (0.169) |
0.582 (0.769) |
9p loss | 8 (10%) | 72 |
0.00138 (0.0131) |
0.127 (0.346) |
0.338 (0.538) |
0.154 (0.377) |
0.336 (0.538) |
0.355 (0.55) |
0.217 (0.45) |
0.293 (0.505) |
9q loss | 7 (9%) | 73 |
0.00769 (0.0553) |
0.126 (0.346) |
0.706 (0.843) |
0.239 (0.466) |
0.422 (0.626) |
0.584 (0.769) |
0.151 (0.374) |
0.449 (0.649) |
1q gain | 8 (10%) | 72 |
0.814 (0.895) |
0.494 (0.684) |
0.803 (0.887) |
0.803 (0.887) |
0.374 (0.569) |
0.0588 (0.228) |
0.838 (0.908) |
0.952 (0.991) |
5p gain | 3 (4%) | 77 |
0.188 (0.412) |
0.179 (0.406) |
0.29 (0.505) |
0.109 (0.332) |
0.281 (0.496) |
0.278 (0.496) |
0.487 (0.679) |
0.77 (0.88) |
5q gain | 3 (4%) | 77 |
0.187 (0.412) |
0.18 (0.406) |
0.292 (0.505) |
0.108 (0.332) |
0.281 (0.496) |
0.277 (0.496) |
0.488 (0.679) |
0.772 (0.88) |
7p gain | 9 (11%) | 71 |
0.245 (0.469) |
0.403 (0.602) |
1 (1.00) |
0.741 (0.877) |
0.34 (0.539) |
0.181 (0.406) |
0.899 (0.958) |
0.465 (0.662) |
7q gain | 8 (10%) | 72 |
0.103 (0.332) |
0.12 (0.341) |
0.957 (0.994) |
0.448 (0.649) |
0.373 (0.569) |
0.33 (0.531) |
0.974 (1.00) |
0.778 (0.883) |
9p gain | 5 (6%) | 75 |
0.482 (0.679) |
0.0926 (0.325) |
0.295 (0.505) |
0.225 (0.45) |
0.288 (0.503) |
1 (1.00) |
0.298 (0.506) |
0.566 (0.757) |
9q gain | 4 (5%) | 76 |
0.804 (0.887) |
0.162 (0.385) |
0.678 (0.827) |
0.537 (0.723) |
0.33 (0.531) |
0.755 (0.88) |
0.286 (0.502) |
0.473 (0.669) |
14q gain | 3 (4%) | 77 |
0.141 (0.358) |
1 (1.00) |
0.104 (0.332) |
0.326 (0.531) |
0.916 (0.964) |
0.592 (0.776) |
0.689 (0.832) |
0.583 (0.769) |
16p gain | 4 (5%) | 76 |
1 (1.00) |
0.455 (0.652) |
0.828 (0.901) |
0.438 (0.642) |
0.788 (0.883) |
0.474 (0.669) |
0.387 (0.579) |
0.748 (0.88) |
20p gain | 8 (10%) | 72 |
0.0968 (0.331) |
0.28 (0.496) |
0.105 (0.332) |
0.22 (0.45) |
0.927 (0.971) |
0.239 (0.466) |
0.204 (0.432) |
0.119 (0.341) |
4q loss | 3 (4%) | 77 |
0.789 (0.883) |
0.771 (0.88) |
0.892 (0.954) |
0.605 (0.781) |
0.916 (0.964) |
0.274 (0.496) |
0.642 (0.803) |
0.309 (0.513) |
8p loss | 4 (5%) | 76 |
0.805 (0.887) |
0.756 (0.88) |
0.623 (0.789) |
0.674 (0.824) |
0.447 (0.649) |
0.629 (0.789) |
0.693 (0.836) |
0.345 (0.542) |
8q loss | 3 (4%) | 77 |
0.484 (0.679) |
0.66 (0.813) |
1 (1.00) |
0.789 (0.883) |
0.762 (0.88) |
0.772 (0.88) |
0.95 (0.991) |
0.585 (0.769) |
12p loss | 3 (4%) | 77 |
0.649 (0.804) |
0.662 (0.813) |
0.242 (0.469) |
0.79 (0.883) |
0.61 (0.781) |
0.52 (0.705) |
0.904 (0.961) |
0.77 (0.88) |
13q loss | 3 (4%) | 77 |
0.875 (0.941) |
0.181 (0.406) |
0.352 (0.549) |
0.602 (0.781) |
0.609 (0.781) |
1 (1.00) |
0.489 (0.679) |
0.315 (0.52) |
15q loss | 4 (5%) | 76 |
0.343 (0.542) |
0.251 (0.476) |
1 (1.00) |
0.827 (0.901) |
0.448 (0.649) |
0.91 (0.964) |
0.515 (0.703) |
0.629 (0.789) |
16p loss | 3 (4%) | 77 |
0.26 (0.487) |
0.5 (0.687) |
0.353 (0.55) |
0.6 (0.781) |
0.761 (0.88) |
1 (1.00) |
1 (1.00) |
1 (1.00) |
19p loss | 3 (4%) | 77 |
0.221 (0.45) |
0.0641 (0.244) |
0.503 (0.689) |
1 (1.00) |
0.761 (0.88) |
0.225 (0.45) |
0.124 (0.344) |
0.14 (0.358) |
19q loss | 3 (4%) | 77 |
0.224 (0.45) |
0.0649 (0.245) |
0.499 (0.687) |
1 (1.00) |
0.76 (0.88) |
0.228 (0.452) |
0.123 (0.344) |
0.139 (0.358) |
P value = 0.0286 (Fisher's exact test), Q value = 0.14
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 22 | 7 | 10 | 31 | 6 | 4 |
2P GAIN MUTATED | 2 | 1 | 5 | 2 | 0 | 0 |
2P GAIN WILD-TYPE | 20 | 6 | 5 | 29 | 6 | 4 |
P value = 0.00312 (Fisher's exact test), Q value = 0.026
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 28 | 16 | 12 |
2P GAIN MUTATED | 1 | 2 | 1 | 6 |
2P GAIN WILD-TYPE | 17 | 26 | 15 | 6 |
P value = 0.0107 (Fisher's exact test), Q value = 0.066
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 22 | 7 | 10 | 31 | 6 | 4 |
2Q GAIN MUTATED | 1 | 0 | 5 | 2 | 0 | 0 |
2Q GAIN WILD-TYPE | 21 | 7 | 5 | 29 | 6 | 4 |
P value = 8e-05 (Fisher's exact test), Q value = 0.0011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 28 | 16 | 12 |
2Q GAIN MUTATED | 0 | 2 | 0 | 6 |
2Q GAIN WILD-TYPE | 18 | 26 | 16 | 6 |
P value = 0.00143 (Fisher's exact test), Q value = 0.013
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 22 | 7 | 10 | 31 | 6 | 4 |
4P GAIN MUTATED | 2 | 4 | 1 | 0 | 0 | 0 |
4P GAIN WILD-TYPE | 20 | 3 | 9 | 31 | 6 | 4 |
P value = 0.00575 (Fisher's exact test), Q value = 0.044
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 22 | 7 | 10 | 31 | 6 | 4 |
4Q GAIN MUTATED | 1 | 3 | 0 | 0 | 0 | 0 |
4Q GAIN WILD-TYPE | 21 | 4 | 10 | 31 | 6 | 4 |
P value = 0.0416 (Fisher's exact test), Q value = 0.18
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 22 | 7 | 10 | 31 | 6 | 4 |
6P GAIN MUTATED | 7 | 3 | 4 | 21 | 3 | 0 |
6P GAIN WILD-TYPE | 15 | 4 | 6 | 10 | 3 | 4 |
P value = 0.0067 (Fisher's exact test), Q value = 0.05
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 28 | 14 | 14 | 24 |
6P GAIN MUTATED | 8 | 7 | 5 | 18 |
6P GAIN WILD-TYPE | 20 | 7 | 9 | 6 |
P value = 0.00034 (Fisher's exact test), Q value = 0.0039
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 15 | 32 | 15 |
6P GAIN MUTATED | 3 | 5 | 24 | 6 |
6P GAIN WILD-TYPE | 15 | 10 | 8 | 9 |
P value = 0.00013 (Fisher's exact test), Q value = 0.0017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 29 | 33 | 18 |
6P GAIN MUTATED | 8 | 25 | 5 |
6P GAIN WILD-TYPE | 21 | 8 | 13 |
P value = 2e-05 (Fisher's exact test), Q value = 0.00031
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 8 | 8 | 11 | 25 | 23 | 5 |
6P GAIN MUTATED | 1 | 3 | 5 | 22 | 6 | 1 |
6P GAIN WILD-TYPE | 7 | 5 | 6 | 3 | 17 | 4 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 17 | 13 | 28 | 22 |
6P GAIN MUTATED | 4 | 6 | 24 | 4 |
6P GAIN WILD-TYPE | 13 | 7 | 4 | 18 |
P value = 0.00027 (Fisher's exact test), Q value = 0.0032
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 20 | 7 | 17 | 9 | 8 | 7 | 6 |
6P GAIN MUTATED | 7 | 2 | 15 | 0 | 4 | 4 | 3 |
6P GAIN WILD-TYPE | 13 | 5 | 2 | 9 | 4 | 3 | 3 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 28 | 16 | 12 |
6P GAIN MUTATED | 6 | 23 | 1 | 5 |
6P GAIN WILD-TYPE | 12 | 5 | 15 | 7 |
P value = 0.0144 (Fisher's exact test), Q value = 0.082
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 28 | 14 | 14 | 24 |
6Q GAIN MUTATED | 1 | 3 | 3 | 9 |
6Q GAIN WILD-TYPE | 27 | 11 | 11 | 15 |
P value = 0.0191 (Fisher's exact test), Q value = 0.1
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 15 | 32 | 15 |
6Q GAIN MUTATED | 1 | 1 | 12 | 2 |
6Q GAIN WILD-TYPE | 17 | 14 | 20 | 13 |
P value = 0.00101 (Fisher's exact test), Q value = 0.01
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 29 | 33 | 18 |
6Q GAIN MUTATED | 1 | 13 | 2 |
6Q GAIN WILD-TYPE | 28 | 20 | 16 |
P value = 0.00089 (Fisher's exact test), Q value = 0.0091
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 8 | 8 | 11 | 25 | 23 | 5 |
6Q GAIN MUTATED | 0 | 0 | 3 | 12 | 1 | 0 |
6Q GAIN WILD-TYPE | 8 | 8 | 8 | 13 | 22 | 5 |
P value = 2e-04 (Fisher's exact test), Q value = 0.0024
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 17 | 13 | 28 | 22 |
6Q GAIN MUTATED | 1 | 3 | 12 | 0 |
6Q GAIN WILD-TYPE | 16 | 10 | 16 | 22 |
P value = 0.0101 (Fisher's exact test), Q value = 0.064
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 20 | 7 | 17 | 9 | 8 | 7 | 6 |
6Q GAIN MUTATED | 1 | 0 | 7 | 0 | 2 | 1 | 3 |
6Q GAIN WILD-TYPE | 19 | 7 | 10 | 9 | 6 | 6 | 3 |
P value = 0.00089 (Fisher's exact test), Q value = 0.0091
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 28 | 16 | 12 |
6Q GAIN MUTATED | 1 | 12 | 0 | 1 |
6Q GAIN WILD-TYPE | 17 | 16 | 16 | 11 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 22 | 7 | 10 | 31 | 6 | 4 |
8P GAIN MUTATED | 12 | 6 | 9 | 5 | 5 | 2 |
8P GAIN WILD-TYPE | 10 | 1 | 1 | 26 | 1 | 2 |
P value = 0.00011 (Fisher's exact test), Q value = 0.0015
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 28 | 14 | 14 | 24 |
8P GAIN MUTATED | 23 | 3 | 6 | 7 |
8P GAIN WILD-TYPE | 5 | 11 | 8 | 17 |
P value = 0.00108 (Fisher's exact test), Q value = 0.011
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 15 | 32 | 15 |
8P GAIN MUTATED | 12 | 9 | 7 | 11 |
8P GAIN WILD-TYPE | 6 | 6 | 25 | 4 |
P value = 6e-05 (Fisher's exact test), Q value = 0.00086
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 29 | 33 | 18 |
8P GAIN MUTATED | 23 | 8 | 8 |
8P GAIN WILD-TYPE | 6 | 25 | 10 |
P value = 0.00275 (Fisher's exact test), Q value = 0.024
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 8 | 8 | 11 | 25 | 23 | 5 |
8P GAIN MUTATED | 5 | 5 | 3 | 7 | 18 | 1 |
8P GAIN WILD-TYPE | 3 | 3 | 8 | 18 | 5 | 4 |
P value = 0.00052 (Fisher's exact test), Q value = 0.0056
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 17 | 13 | 28 | 22 |
8P GAIN MUTATED | 13 | 2 | 9 | 15 |
8P GAIN WILD-TYPE | 4 | 11 | 19 | 7 |
P value = 0.0316 (Fisher's exact test), Q value = 0.15
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 20 | 7 | 17 | 9 | 8 | 7 | 6 |
8P GAIN MUTATED | 15 | 5 | 6 | 1 | 4 | 4 | 3 |
8P GAIN WILD-TYPE | 5 | 2 | 11 | 8 | 4 | 3 | 3 |
P value = 0.00826 (Fisher's exact test), Q value = 0.056
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 28 | 16 | 12 |
8P GAIN MUTATED | 14 | 8 | 10 | 6 |
8P GAIN WILD-TYPE | 4 | 20 | 6 | 6 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 22 | 7 | 10 | 31 | 6 | 4 |
8Q GAIN MUTATED | 18 | 6 | 10 | 9 | 6 | 4 |
8Q GAIN WILD-TYPE | 4 | 1 | 0 | 22 | 0 | 0 |
P value = 2e-05 (Fisher's exact test), Q value = 0.00031
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 28 | 14 | 14 | 24 |
8Q GAIN MUTATED | 27 | 5 | 10 | 11 |
8Q GAIN WILD-TYPE | 1 | 9 | 4 | 13 |
P value = 0.00017 (Fisher's exact test), Q value = 0.0021
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 15 | 32 | 15 |
8Q GAIN MUTATED | 15 | 12 | 12 | 14 |
8Q GAIN WILD-TYPE | 3 | 3 | 20 | 1 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 29 | 33 | 18 |
8Q GAIN MUTATED | 27 | 12 | 14 |
8Q GAIN WILD-TYPE | 2 | 21 | 4 |
P value = 2e-05 (Fisher's exact test), Q value = 0.00031
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 8 | 8 | 11 | 25 | 23 | 5 |
8Q GAIN MUTATED | 7 | 7 | 3 | 12 | 22 | 2 |
8Q GAIN WILD-TYPE | 1 | 1 | 8 | 13 | 1 | 3 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 17 | 13 | 28 | 22 |
8Q GAIN MUTATED | 16 | 3 | 14 | 20 |
8Q GAIN WILD-TYPE | 1 | 10 | 14 | 2 |
P value = 0.00995 (Fisher's exact test), Q value = 0.064
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 20 | 7 | 17 | 9 | 8 | 7 | 6 |
8Q GAIN MUTATED | 19 | 6 | 8 | 4 | 5 | 4 | 5 |
8Q GAIN WILD-TYPE | 1 | 1 | 9 | 5 | 3 | 3 | 1 |
P value = 6e-05 (Fisher's exact test), Q value = 0.00086
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 28 | 16 | 12 |
8Q GAIN MUTATED | 18 | 12 | 14 | 7 |
8Q GAIN WILD-TYPE | 0 | 16 | 2 | 5 |
P value = 0.00824 (Fisher's exact test), Q value = 0.056
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 22 | 7 | 10 | 31 | 6 | 4 |
11P GAIN MUTATED | 4 | 0 | 5 | 1 | 0 | 0 |
11P GAIN WILD-TYPE | 18 | 7 | 5 | 30 | 6 | 4 |
P value = 0.00638 (Fisher's exact test), Q value = 0.048
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 28 | 16 | 12 |
11P GAIN MUTATED | 0 | 3 | 1 | 5 |
11P GAIN WILD-TYPE | 18 | 25 | 15 | 7 |
P value = 0.0383 (Fisher's exact test), Q value = 0.17
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 28 | 16 | 12 |
11Q GAIN MUTATED | 0 | 3 | 1 | 4 |
11Q GAIN WILD-TYPE | 18 | 25 | 15 | 8 |
P value = 0.0101 (Fisher's exact test), Q value = 0.064
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 29 | 33 | 18 |
12P GAIN MUTATED | 0 | 0 | 3 |
12P GAIN WILD-TYPE | 29 | 33 | 15 |
P value = 0.00919 (Fisher's exact test), Q value = 0.061
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 29 | 33 | 18 |
12Q GAIN MUTATED | 0 | 0 | 3 |
12Q GAIN WILD-TYPE | 29 | 33 | 15 |
P value = 0.0251 (Fisher's exact test), Q value = 0.13
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 22 | 7 | 10 | 31 | 6 | 4 |
13Q GAIN MUTATED | 1 | 0 | 4 | 1 | 0 | 0 |
13Q GAIN WILD-TYPE | 21 | 7 | 6 | 30 | 6 | 4 |
P value = 0.00156 (Fisher's exact test), Q value = 0.014
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 20 | 7 | 17 | 9 | 8 | 7 | 6 |
13Q GAIN MUTATED | 1 | 0 | 0 | 0 | 1 | 4 | 0 |
13Q GAIN WILD-TYPE | 19 | 7 | 17 | 9 | 7 | 3 | 6 |
P value = 0.00777 (Fisher's exact test), Q value = 0.055
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 28 | 16 | 12 |
13Q GAIN MUTATED | 0 | 2 | 0 | 4 |
13Q GAIN WILD-TYPE | 18 | 26 | 16 | 8 |
P value = 0.00035 (Fisher's exact test), Q value = 0.0039
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 22 | 7 | 10 | 31 | 6 | 4 |
17P GAIN MUTATED | 1 | 0 | 6 | 1 | 0 | 0 |
17P GAIN WILD-TYPE | 21 | 7 | 4 | 30 | 6 | 4 |
P value = 0.0396 (Fisher's exact test), Q value = 0.17
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 28 | 16 | 12 |
17P GAIN MUTATED | 0 | 3 | 1 | 4 |
17P GAIN WILD-TYPE | 18 | 25 | 15 | 8 |
P value = 0.00146 (Fisher's exact test), Q value = 0.013
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 22 | 7 | 10 | 31 | 6 | 4 |
17Q GAIN MUTATED | 1 | 0 | 6 | 2 | 0 | 0 |
17Q GAIN WILD-TYPE | 21 | 7 | 4 | 29 | 6 | 4 |
P value = 0.0283 (Fisher's exact test), Q value = 0.14
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 17 | 13 | 28 | 22 |
17Q GAIN MUTATED | 3 | 0 | 6 | 0 |
17Q GAIN WILD-TYPE | 14 | 13 | 22 | 22 |
P value = 0.0383 (Fisher's exact test), Q value = 0.17
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 28 | 16 | 12 |
17Q GAIN MUTATED | 0 | 4 | 1 | 4 |
17Q GAIN WILD-TYPE | 18 | 24 | 15 | 8 |
P value = 0.0423 (Fisher's exact test), Q value = 0.18
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 15 | 32 | 15 |
20Q GAIN MUTATED | 1 | 4 | 1 | 3 |
20Q GAIN WILD-TYPE | 17 | 11 | 31 | 12 |
P value = 0.033 (Fisher's exact test), Q value = 0.16
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 22 | 7 | 10 | 31 | 6 | 4 |
21Q GAIN MUTATED | 5 | 1 | 5 | 2 | 0 | 1 |
21Q GAIN WILD-TYPE | 17 | 6 | 5 | 29 | 6 | 3 |
P value = 0.0135 (Fisher's exact test), Q value = 0.078
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 29 | 33 | 18 |
21Q GAIN MUTATED | 5 | 2 | 7 |
21Q GAIN WILD-TYPE | 24 | 31 | 11 |
P value = 0.00313 (Fisher's exact test), Q value = 0.026
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 20 | 7 | 17 | 9 | 8 | 7 | 6 |
22Q GAIN MUTATED | 0 | 1 | 0 | 0 | 1 | 3 | 0 |
22Q GAIN WILD-TYPE | 20 | 6 | 17 | 9 | 7 | 4 | 6 |
P value = 0.033 (Fisher's exact test), Q value = 0.16
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 28 | 16 | 12 |
22Q GAIN MUTATED | 0 | 2 | 0 | 3 |
22Q GAIN WILD-TYPE | 18 | 26 | 16 | 9 |
P value = 0.0363 (Fisher's exact test), Q value = 0.17
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 28 | 14 | 14 | 24 |
XP GAIN MUTATED | 1 | 1 | 5 | 3 |
XP GAIN WILD-TYPE | 27 | 13 | 9 | 21 |
P value = 0.0369 (Fisher's exact test), Q value = 0.17
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 20 | 7 | 17 | 9 | 8 | 7 | 6 |
XP GAIN MUTATED | 0 | 1 | 4 | 0 | 3 | 1 | 0 |
XP GAIN WILD-TYPE | 20 | 6 | 13 | 9 | 5 | 6 | 6 |
P value = 0.02 (Fisher's exact test), Q value = 0.11
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 29 | 33 | 18 |
XQ GAIN MUTATED | 0 | 5 | 4 |
XQ GAIN WILD-TYPE | 29 | 28 | 14 |
P value = 0.0316 (Fisher's exact test), Q value = 0.15
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 28 | 16 | 12 |
XQ GAIN MUTATED | 0 | 5 | 0 | 3 |
XQ GAIN WILD-TYPE | 18 | 23 | 16 | 9 |
P value = 0.0149 (Fisher's exact test), Q value = 0.084
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 20 | 7 | 17 | 9 | 8 | 7 | 6 |
1P LOSS MUTATED | 6 | 1 | 3 | 0 | 5 | 4 | 0 |
1P LOSS WILD-TYPE | 14 | 6 | 14 | 9 | 3 | 3 | 6 |
P value = 0.0302 (Fisher's exact test), Q value = 0.15
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 28 | 16 | 12 |
1P LOSS MUTATED | 1 | 7 | 8 | 3 |
1P LOSS WILD-TYPE | 17 | 21 | 8 | 9 |
P value = 0.0457 (Fisher's exact test), Q value = 0.19
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 17 | 13 | 28 | 22 |
1Q LOSS MUTATED | 0 | 0 | 0 | 3 |
1Q LOSS WILD-TYPE | 17 | 13 | 28 | 19 |
P value = 0.012 (Fisher's exact test), Q value = 0.071
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 28 | 16 | 12 |
1Q LOSS MUTATED | 0 | 0 | 3 | 0 |
1Q LOSS WILD-TYPE | 18 | 28 | 13 | 12 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 22 | 7 | 10 | 31 | 6 | 4 |
3P LOSS MUTATED | 17 | 7 | 8 | 2 | 6 | 3 |
3P LOSS WILD-TYPE | 5 | 0 | 2 | 29 | 0 | 1 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 28 | 14 | 14 | 24 |
3P LOSS MUTATED | 28 | 3 | 10 | 2 |
3P LOSS WILD-TYPE | 0 | 11 | 4 | 22 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 15 | 32 | 15 |
3P LOSS MUTATED | 18 | 10 | 2 | 13 |
3P LOSS WILD-TYPE | 0 | 5 | 30 | 2 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 29 | 33 | 18 |
3P LOSS MUTATED | 29 | 2 | 12 |
3P LOSS WILD-TYPE | 0 | 31 | 6 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 8 | 8 | 11 | 25 | 23 | 5 |
3P LOSS MUTATED | 8 | 5 | 2 | 2 | 23 | 3 |
3P LOSS WILD-TYPE | 0 | 3 | 9 | 23 | 0 | 2 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 17 | 13 | 28 | 22 |
3P LOSS MUTATED | 17 | 1 | 3 | 22 |
3P LOSS WILD-TYPE | 0 | 12 | 25 | 0 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 20 | 7 | 17 | 9 | 8 | 7 | 6 |
3P LOSS MUTATED | 20 | 6 | 2 | 4 | 5 | 2 | 3 |
3P LOSS WILD-TYPE | 0 | 1 | 15 | 5 | 3 | 5 | 3 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 28 | 16 | 12 |
3P LOSS MUTATED | 17 | 3 | 16 | 6 |
3P LOSS WILD-TYPE | 1 | 25 | 0 | 6 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 22 | 7 | 10 | 31 | 6 | 4 |
3Q LOSS MUTATED | 17 | 7 | 8 | 2 | 6 | 3 |
3Q LOSS WILD-TYPE | 5 | 0 | 2 | 29 | 0 | 1 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 28 | 14 | 14 | 24 |
3Q LOSS MUTATED | 28 | 3 | 10 | 2 |
3Q LOSS WILD-TYPE | 0 | 11 | 4 | 22 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 15 | 32 | 15 |
3Q LOSS MUTATED | 18 | 10 | 2 | 13 |
3Q LOSS WILD-TYPE | 0 | 5 | 30 | 2 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 29 | 33 | 18 |
3Q LOSS MUTATED | 29 | 2 | 12 |
3Q LOSS WILD-TYPE | 0 | 31 | 6 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 8 | 8 | 11 | 25 | 23 | 5 |
3Q LOSS MUTATED | 8 | 5 | 2 | 2 | 23 | 3 |
3Q LOSS WILD-TYPE | 0 | 3 | 9 | 23 | 0 | 2 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 17 | 13 | 28 | 22 |
3Q LOSS MUTATED | 17 | 1 | 3 | 22 |
3Q LOSS WILD-TYPE | 0 | 12 | 25 | 0 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 20 | 7 | 17 | 9 | 8 | 7 | 6 |
3Q LOSS MUTATED | 20 | 6 | 2 | 4 | 5 | 2 | 3 |
3Q LOSS WILD-TYPE | 0 | 1 | 15 | 5 | 3 | 5 | 3 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 28 | 16 | 12 |
3Q LOSS MUTATED | 17 | 3 | 16 | 6 |
3Q LOSS WILD-TYPE | 1 | 25 | 0 | 6 |
P value = 0.0385 (Fisher's exact test), Q value = 0.17
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 20 | 7 | 17 | 9 | 8 | 7 | 6 |
5Q LOSS MUTATED | 0 | 0 | 0 | 0 | 2 | 1 | 0 |
5Q LOSS WILD-TYPE | 20 | 7 | 17 | 9 | 6 | 6 | 6 |
P value = 1e-05 (Fisher's exact test), Q value = 0.00017
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 22 | 7 | 10 | 31 | 6 | 4 |
6Q LOSS MUTATED | 0 | 7 | 2 | 4 | 4 | 0 |
6Q LOSS WILD-TYPE | 22 | 0 | 8 | 27 | 2 | 4 |
P value = 0.0105 (Fisher's exact test), Q value = 0.066
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 28 | 14 | 14 | 24 |
6Q LOSS MUTATED | 12 | 1 | 1 | 3 |
6Q LOSS WILD-TYPE | 16 | 13 | 13 | 21 |
P value = 0.00465 (Fisher's exact test), Q value = 0.036
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 29 | 33 | 18 |
6Q LOSS MUTATED | 12 | 4 | 1 |
6Q LOSS WILD-TYPE | 17 | 29 | 17 |
P value = 0.0337 (Fisher's exact test), Q value = 0.16
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 20 | 7 | 17 | 9 | 8 | 7 | 6 |
6Q LOSS MUTATED | 10 | 2 | 2 | 2 | 0 | 1 | 0 |
6Q LOSS WILD-TYPE | 10 | 5 | 15 | 7 | 8 | 6 | 6 |
P value = 0.00384 (Fisher's exact test), Q value = 0.031
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 28 | 16 | 12 |
6Q LOSS MUTATED | 10 | 3 | 2 | 2 |
6Q LOSS WILD-TYPE | 8 | 25 | 14 | 10 |
P value = 0.00138 (Fisher's exact test), Q value = 0.013
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 22 | 7 | 10 | 31 | 6 | 4 |
9P LOSS MUTATED | 0 | 2 | 3 | 1 | 0 | 2 |
9P LOSS WILD-TYPE | 22 | 5 | 7 | 30 | 6 | 2 |
P value = 0.00769 (Fisher's exact test), Q value = 0.055
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 22 | 7 | 10 | 31 | 6 | 4 |
9Q LOSS MUTATED | 0 | 2 | 3 | 1 | 0 | 1 |
9Q LOSS WILD-TYPE | 22 | 5 | 7 | 30 | 6 | 3 |
P value = 0.0218 (Fisher's exact test), Q value = 0.12
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
---|---|---|---|---|---|---|
ALL | 22 | 7 | 10 | 31 | 6 | 4 |
16Q LOSS MUTATED | 4 | 5 | 1 | 4 | 2 | 0 |
16Q LOSS WILD-TYPE | 18 | 2 | 9 | 27 | 4 | 4 |
P value = 0.0277 (Fisher's exact test), Q value = 0.14
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 28 | 14 | 14 | 24 |
16Q LOSS MUTATED | 10 | 0 | 3 | 3 |
16Q LOSS WILD-TYPE | 18 | 14 | 11 | 21 |
P value = 0.0131 (Fisher's exact test), Q value = 0.077
nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
---|---|---|---|
ALL | 29 | 33 | 18 |
16Q LOSS MUTATED | 11 | 4 | 1 |
16Q LOSS WILD-TYPE | 18 | 29 | 17 |
P value = 0.0368 (Fisher's exact test), Q value = 0.17
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 20 | 7 | 17 | 9 | 8 | 7 | 6 |
XP LOSS MUTATED | 4 | 1 | 0 | 1 | 4 | 2 | 0 |
XP LOSS WILD-TYPE | 16 | 6 | 17 | 8 | 4 | 5 | 6 |
P value = 0.0112 (Fisher's exact test), Q value = 0.068
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 28 | 16 | 12 |
XP LOSS MUTATED | 2 | 3 | 7 | 0 |
XP LOSS WILD-TYPE | 16 | 25 | 9 | 12 |
P value = 0.0155 (Fisher's exact test), Q value = 0.086
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 28 | 14 | 14 | 24 |
XQ LOSS MUTATED | 5 | 1 | 6 | 1 |
XQ LOSS WILD-TYPE | 23 | 13 | 8 | 23 |
P value = 0.00788 (Fisher's exact test), Q value = 0.055
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 |
---|---|---|---|---|---|---|---|
ALL | 20 | 7 | 17 | 9 | 8 | 7 | 6 |
XQ LOSS MUTATED | 4 | 1 | 0 | 1 | 5 | 2 | 0 |
XQ LOSS WILD-TYPE | 16 | 6 | 17 | 8 | 3 | 5 | 6 |
P value = 0.00313 (Fisher's exact test), Q value = 0.026
nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 |
---|---|---|---|---|
ALL | 18 | 28 | 16 | 12 |
XQ LOSS MUTATED | 2 | 3 | 8 | 0 |
XQ LOSS WILD-TYPE | 16 | 25 | 8 | 12 |
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Copy number data file = broad_values_by_arm.txt from GISTIC pipeline
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Processed Copy number data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/UVM-TP/22534465/transformed.cor.cli.txt
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Molecular subtypes file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/UVM-TP/22542449/UVM-TP.transferedmergedcluster.txt
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Number of patients = 80
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Number of significantly arm-level cnvs = 50
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Number of molecular subtypes = 8
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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.