Table 2 Summary information of cis-SNPs for the 10 cancers and the association of cis-SNP effect sizes for each gene in TCGA and GTEx
Cancer | Mean | Median | Max | Min | R2 > 0.10 (%) | FDR < 0.05 (%) |
|---|---|---|---|---|---|---|
ACC | 3,521 | 3,597 | 13,279 | 8 | 325 (2.9) | 8533 (76.4) |
BRCA | 3,089 | 3,337 | 13,086 | 9 | 309 (4.0) | 5265 (67.6) |
COAD | 3,655 | 3,737 | 12,881 | 4 | 297 (2.6) | 8504 (73.7) |
LIHC | 3,492 | 3,597 | 8,479 | 3 | 202 (2.4) | 6396 (74.6) |
LUAD | 3,732 | 3,733 | 12,717 | 20 | 170 (1.6) | 7917 (74.6) |
LUSC | 3,525 | 3,611 | 12,726 | 6 | 282 (3.0) | 7004 (74.2) |
OV | 1,935 | 1,750 | 6,752 | 3 | 977 (12.7) | 5329 (69.0) |
PAAD | 3,801 | 3,784 | 13,382 | 9 | 167 (1.6) | 7905 (73.7) |
STAD | 3,500 | 3,687 | 13,091 | 3 | 168 (1.8) | 6496 (70.3) |
UCEC | 3,721 | 3,727 | 13,063 | 7 | 186 (1.7) | 8086 (73.9) |
Average | 3,397 | 3,456 | 11,946 | 7 | 308 (3.4) | 7145 (72.8) |