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

Ricardo Salomon-Torres; Rafael Villa-Angulo; Carlos Villa-Angulo

doi:10.1016/j.gdata.2015.12.007

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

Genom Data. 2015 Dec 17:7:97-100. doi: 10.1016/j.gdata.2015.12.007. eCollection 2016 Mar.

Authors

Ricardo Salomon-Torres¹, Rafael Villa-Angulo², Carlos Villa-Angulo²

Affiliations

¹ Sonora State University, S.L.R.C., Sonora, México; Faculty of Engineering Mexicali, Autonomous University of Baja California, BC, Mexico.
² Laboratory of Bioinformatics and Biofotonics, Engineering Institute, Autonomous University of Baja California, BC, Mexico.

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: Axiom genome-wide Bos 1 array; Bioinformatics; Copy number variation; Holstein cattle; PennCNV; SNP.