Table 3 Alleles that undergo somatic selection in cancers are enriched for deleterious alleles
From: Exonic variants undergoing allele-specific selection in cancers
Somatic selection | Cancer type | Significance level of \({\pi }_{i}\) | Fraction of deleterious alleles undergo somatic selection | Fraction of deleterious alleles in exonic alleles | Ratio | P value |
|---|---|---|---|---|---|---|
Selected-for | BRCA | 0.001 | 0.286 | 0.426 | 0.670 | 6.361e-01 |
0.01 | 0.533 | 0.426 | 1.251 | 2.362e-02 | ||
0.05 | 0.516 | 0.426 | 1.211 | 1.914e-04 | ||
COAD | 0.001 | 0.800 | 0.423 | 1.893 | 1.347e-02 | |
0.01 | 0.617 | 0.423 | 1.461 | 1.349e-04 | ||
0.05 | 0.525 | 0.423 | 1.241 | 4.558e-06 | ||
LUAD | 0.001 | 0.400 | 0.441 | 0.908 | 5.186e-01 | |
0.01 | 0.509 | 0.441 | 1.155 | 6.151e-02 | ||
0.05 | 0.481 | 0.441 | 1.091 | 3.543e-02 | ||
PRAD | 0.001 | NA | 0.436 | NA | NA | |
0.01 | NA | 0.436 | NA | NA | ||
0.05 | 0.500 | 0.436 | 1.148 | 1.673e-01 | ||
Selected-against | BRCA | 0.001 | 0.370 | 0.426 | 0.869 | 6.497e-01 |
0.01 | 0.471 | 0.426 | 1.105 | 1.250e-01 | ||
0.05 | 0.503 | 0.426 | 1.181 | 4.496e-05 | ||
COAD | 0.001 | 0.286 | 0.423 | 0.676 | 6.284e-01 | |
0.01 | 0.510 | 0.423 | 1.208 | 3.282e-02 | ||
0.05 | 0.477 | 0.423 | 1.129 | 5.585e-03 | ||
LUAD | 0.001 | 0.472 | 0.441 | 1.070 | 2.753e-01 | |
0.01 | 0.505 | 0.441 | 1.146 | 1.024e-02 | ||
0.05 | 0.493 | 0.441 | 1.118 | 3.740e-04 | ||
PRAD | 0.001 | 0.500 | 0.436 | 1.148 | 1.898e-01 | |
0.01 | 0.538 | 0.436 | 1.236 | 1.522e-01 | ||
0.05 | 0.356 | 0.436 | 0.817 | 9.524e-01 |