Table 5 Comparison of concordance between BWA-MEM and Athlon2 for development batch
From: A computational HLA allele-typing protocol to de-noise and leverage nanopore amplicon data
Gene | P-Value | BWA-MEM Concordance | Athlon2 Concordance | Difference |
|---|---|---|---|---|
HLA-A | 1.00E + 00 | 98.4% | 98.4% | ns |
HLA-B | 4.80E-01 | 96.8% | 100.0% | ns |
HLA-C | 1.00E + 00 | 98.4% | 100.0% | ns |
HLA-DPA1 | 4.80E-01 | 96.8% | 100.0% | ns |
HLA-DPB1 | 1.00E + 00 | 98.4% | 100.0% | ns |
HLA-DQA1 | 1.00E + 00 | 98.4% | 100.0% | ns |
HLA-DQB1 | NA | 98.4% | 98.4% | ns |
HLA-DRB1 | 2.15E-05 | 64.5% | 96.8% | Athlon2 higher concordance* |
HLA-DRB3 | 1.00E + 00 | 73.9% | 78.3% | ns |
HLA-DRB5 | 1.00E + 00 | 100.0% | 87.5% | ns |
Overall | 3.14E-05 | 93.0% | 98.1% | Athlon2 higher concordance* |