Fast and accurate HLA typing from short-read next-generation sequence data with xHLA.
other · Level V
Where this comes from
- Record sourced from PubMed, PMID 28674023.
- Also identified by DOI 10.1073/pnas.1707945114 and PMC identifier 5544337.
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Abstract
The HLA gene complex on human chromosome 6 is one of the most polymorphic regions in the human genome and contributes in large part to the diversity of the immune system. Accurate typing of HLA genes with short-read sequencing data has historically been difficult due to the sequence similarity between the polymorphic alleles. Here, we introduce an algorithm, xHLA, that iteratively refines the mapping results at the amino acid level to achieve 99-100% four-digit typing accuracy for both class I and II HLA genes, taking only [Formula: see text]3 min to process a 30× whole-genome BAM file on a desktop computer.
Medical subject headings
- Histocompatibility Testing