Table 3 Percent concordance by gene for 31 development batch samples aligned via HLA-LA pipeline and Athlon2 pipeline
From: A computational HLA allele-typing protocol to de-noise and leverage nanopore amplicon data
| Â | HLA-LA pipeline | Athlon2 Pipeline | Â | |||
|---|---|---|---|---|---|---|
Gene | 1st field | 2nd field | 3rd field | 1st field | 2nd field | 3rd field |
(% success) | (% success) | (% success) | (% success) | (% success) | (% success) | |
HLA-A | 100.0% | 100.0% | 98.4% | 100.0% | 100.0% | 98.4% |
HLA-B | 100.0% | 98.4% | 91.9% | 100.0% | 100.0% | 100.0% |
HLA-C | 100.0% | 98.4% | 95.2% | 100.0% | 100.0% | 100.0% |
HLA-DPA1 | 100.0% | 93.5% | 93.5% | 100.0% | 100.0% | 100.0% |
HLA-DPB1 | 91.9% | 91.9% | 87.1% | 100.0% | 100.0% | 100.0% |
HLA-DQA1 | 100.0% | 67.7% | 56.5% | 100.0% | 100.0% | 100.0% |
HLA-DQB1 | 100.0% | 91.9% | 91.9% | 100.0% | 98.4% | 98.4% |
HLA-DRB1 | 100.0% | 90.3% | 90.3% | 96.8% | 96.8% | 96.8% |
HLA-DRB3 | 100.0% | 95.7% | 95.7% | 78.3% | 78.3% | 78.3% |
HLA-DRB4 | 100.0% | 18.8% | 18.8% | 0.0% | 0.0% | 0.0% |
HLA-DRB5 | N/A | N/A | N/A | 87.5% | 87.5% | 87.5% |
Overall | 99.1% | 89.5% | 86.4% | 98.5% | 98.3% | 98.1% |