Open Access Highly Accessed Research article

Polymorphism discovery and allele frequency estimation using high-throughput DNA sequencing of target-enriched pooled DNA samples

Michael P Mullen1*, Christopher J Creevey2*, Donagh P Berry3, Matt S McCabe2, David A Magee4, Dawn J Howard1, Aideen P Killeen2, Stephen D Park4, Paul A McGettigan4, Matt C Lucy5, David E MacHugh46 and Sinead M Waters2

Author Affiliations

1 Animal and Bioscience Research Department, Animal and Grassland Research and Innovation Centre, Teagasc, Athenry, Galway, Ireland

2 Grange, Dunsany, Meath, Ireland

3 Moorepark, Fermoy, Cork, Ireland

4 Animal Genomics Laboratory, UCD School of Agriculture and Food Science, University College Dublin, Belfield, Dublin 4, Ireland

5 Department of Animal Sciences, University of Missouri, Columbia, USA

6 UCD Conway Institute of Biomolecular and Biomedical Research, University College Dublin, Belfield, Dublin 4, Ireland

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BMC Genomics 2012, 13:16  doi:10.1186/1471-2164-13-16

Published: 11 January 2012

Additional files

Additional file 1:

Excel file containing the four additional tables. Additional Table 1 - details of the genes including sequence co ordinates selected for target enrichment and sequencing. Additional Table 2 - details of the SNPs and indels identified across the 83 candidate genes in both the low and high calving interval DNA pools. Additional Table 3 - details of all SNPs reported on dbSNPv130 within the 1.5 Mb DNA sequences targeted for sequencing. Additional Table 4 - 24 undetected SNPs validated as segregating in the 150 Holstein-Friesian sires using Sequenom® MassARRAY genotyping.

Format: XLSX Size: 878KB Download file

Open Data