Table 1 Simulated bias in variant sites that are polymorphic with MAF >1% in Europeans, from single-end read simulations based on genome sequence and aligned with BWA
From: Allelic mapping bias in RNA-sequencing is not a major confounder in eQTL studies
| Â | SNPs | Indels | Total |
|---|---|---|---|
(90.84% of total) | (9.16% of total) | ||
Variants (n) | 8,650,740 | 872,262 | 9,523,002 |
Variants with >0% bias | 1,822,445 | 550,423 | 2,372,868 |
(21.06%) | (63.10%) | (24.91%) | |
Variants with >5% bias | 1,088,730 | 397,399 | 1,486,129 |
(12.58% of SNPs) | (45.56% of indels) | (15.60% of total) |