Inference of high resolution HLA types using genome-wide RNA or DNA sequencing reads.

ABSTRACT:

Background

Accurate HLA typing at amino acid level (four-digit resolution) is critical in hematopoietic and organ transplantations, pathogenesis studies of autoimmune and infectious diseases, as well as the development of immunoncology therapies. With the rapid adoption of genome-wide sequencing in biomedical research, HLA typing based on transcriptome and whole exome/genome sequencing data becomes increasingly attractive due to its high throughput and convenience. However, unlike targeted amplicon sequencing, genome-wide sequencing often employs a reduced read length and coverage that impose great challenges in resolving the highly homologous HLA alleles. Though several algorithms exist and have been applied to four-digit typing, some deliver low to moderate accuracies, some outpu

SUBMITTER: Bai Y 

PROVIDER: S-EPMC4035057 | biostudies-literature | 2014 May

REPOSITORIES: biostudies-literature