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Table 2 Comparison of HLA typing accuracies using HapMap data

From: HLAscan: genotyping of the HLA region using next-generation sequencing data

Gene A B C DQB1 DRB1
# alleles 36 36 22 92 90
Methods HLA reporter HLA scan HLA reporter HLA scan HLA reporter HLA scan HLA reporter HLA scan HLA reporter HLA scan
Phase 5 - 6 - 4 - 0 - 2 -
Inaccurate
(2-digit)
0 0 0 0 0 0 1 0 2 3
Inaccurate*
(4-digit)
7 0 6 0 1 2 10 8 4 4
Accuracy
(2-digit)
100% 100% 100% 100% 100% 100% 98.9% 100% 97.8% 96.7%
Accuracy
(4-digit)
80.5% 100% 83.3% 100% 95.5% 90.9% 89.1% 91.3% 95.6% 95.6%
  1. Comparison of typing results obtained using HLAreporter and HLAscan for HLA-A, −B, and -C (class I) and HLA-DRB1 and -DQB1 (class II). Verified HLA typing results were reported elsewhere [12]. * Inaccurate typing includes both mistyped and ambiguous cases