FuFiHLA: A tool for Full-Field HLA typing from long reads data.

ABSTRACT:

Motivation

Allele typing for Human Leukocyte Antigen (HLA) genes has many important clinical applications. Popular short-read typing can only accurately distinguish alleles at the peptide level, which potentially limit our understanding of the effect of variants in non-coding region. Recently, a few methods were declared to distinguish full-field HLA alleles from de-novo assemblies, which motivates us to develop an accurate HLA typing method directly from long reads.

Results

We developed FuFiHLA, a lightweight open-source software, to type HLA alleles. Currently it supports typing alleles of six HLA genes (HLA-A, HLA-B, HLA-C, HLA-DRB1, HLA-DQA1, and HLA-DQB1) from long reads. Evaluation using 47 PacBio HiFi samples from HPRC shows that FuFiHLA achieves 99.57% accuracy in th

SUBMITTER: Hu J 

PROVIDER: S-EPMC12633391 | biostudies-literature | 2025 Oct

REPOSITORIES: biostudies-literature