Developing a 670k genotyping array to tag ~2M SNPs across 24 horse breeds.

ABSTRACT:

Background

To date, genome-scale analyses in the domestic horse have been limited by suboptimal single nucleotide polymorphism (SNP) density and uneven genomic coverage of the current SNP genotyping arrays. The recent availability of whole genome sequences has created the opportunity to develop a next generation, high-density equine SNP array.

Results

Using whole genome sequence from 153 individuals representing 24 distinct breeds collated by the equine genomics community, we cataloged over 23 million de novo discovered genetic variants. Leveraging genotype data from individuals with both whole genome sequence, and genotypes from lower-density, legacy SNP arrays, a subset of ~5 million high-quality, high-density array candidate SNPs were selected based on breed representatio

SUBMITTER: Schaefer RJ 

PROVIDER: S-EPMC5530493 | biostudies-literature | 2017 Jul

REPOSITORIES: biostudies-literature