A computational HLA allele-typing protocol to de-noise and leverage nanopore amplicon data
Our algorithm had a > 96% concordance for non-HLA-DRB genes at 3rd field on the first batch and > 88% concordance for non-HLA-DRB genes at 3rd field and > 90% at 2nd field on the second batch tested. In addition, it out-performs HLA-LA and approaches the performance of the Athlon2. This lays groundwork for better utilizing Nanopore sequencing data for HLA typing especially in improving organ transplant outcomes.
Authors
- Ronnie LaCombe
- Judith R. Alonzo
- J. Aaron Grantham (ORCID: https://orcid.org/0000-0003-1539-8448)
- Jalal Siddiqui (ORCID: https://orcid.org/0000-0002-5100-6432)
- Scott Cowden
- Rohita Sinha (ORCID: https://orcid.org/0009-0008-0893-914X)
- Steven B. Kleiboeker
Institutions
- American College of Clinical Pharmacy (US)
Publication Details
- Journal
- BMC Genomics
- Published
- 2025-04-08
- DOI
- https://doi.org/10.1186/s12864-025-11547-4
- Citations
- 1
- Primary Topic
- Single-cell and spatial transcriptomics
- Type
- article
- Field-Weighted Citation Impact
- 0.81