Analysis of copy number variations in Mexican Holstein cattle using axiom genome-wide Bos 1 array

Abstract

Recently, for copy number variation (CNV) analysis, bovine researchers have focused mainly on the use of genome-wide SNP genotyping arrays. One of the highest densities commercially available SNPchips for cattle is the Affymetrix axiom genome-wide Bos 1, which assays 648,315 informative SNPs across the whole bovine genome. Here, we describe the microarray data, quality controls and validation implemented in a study published in Genetics and Molecular Research Journal in 2015 [1]. The microarray raw data has been deposited into Gene Expression Omnibus under accession #GSE54813. Keywords: Holstein cattle, Copy number variation, SNP, Axiom genome-wide Bos 1 array, Bioinformatics, PennCNV