Uncovering novel MHC alleles from RNA-Seq data: expanding the spectrum of MHC class I alleles in sheep.

ABSTRACT:

Background

Major histocompatibility complex (MHC) class I glycoproteins present selected peptides or antigens to CD8 + T cells that control the cytotoxic immune response. The MHC class I genes are among the most polymorphic loci in the vertebrate genome, with more than twenty thousand alleles known in humans. In sheep, only a very small number of alleles have been described to date, making the development of genotyping systems or functional studies difficult. A cost-effective way to identify new alleles could be to use already available RNA-Seq data from sheep. Current strategies for aligning RNA-Seq reads against annotated genome sequences or transcriptomes fail to detect the majority of class I alleles. Here, I combine the alignment of RNA-Seq reads against a specific reference d

SUBMITTER: Buitkamp J 

PROVIDER: S-EPMC9809118 | biostudies-literature | 2023 Jan

REPOSITORIES: biostudies-literature