Table 3 HLA calling accuracy and concordance with gold standard in 270 individuals
From: Next-generation sequencing for HLA typing of class I loci
Population | Concordant alleles | Original type missing | Original type incorrect | Incorrect call due to low coverage | Incorrect due to other reasons | Total | Accuracy |
|---|---|---|---|---|---|---|---|
CEU | 457 | 66 | 6 | 10 | 1 | 540 (= 90 × 6) | 97.7% (463/474) |
YRI | 485 | 8 | 16 | 29 | 2 | 540 (= 90 × 6) | 94.2% (501/532) |
JPT | 246 | 6 | 9 | 5 | 4 | 270 (= 45 × 6) | 96.6% (255/264) |
CHB | 258 | 0 | 7 | 5 | 0 | 270 (= 45 × 6) | 98.1% (265/270) |
Total | 1446 | 80 | 38 | 49 | 7 | 1620 | 96.4% |