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Development of a genetic tool for product regulation in the diverse British pig breed market

Samantha Wilkinson15, Alan L Archibald1, Chris S Haley12, Hendrik-Jan Megens3, Richard PMA Crooijmans3, Martien AM Groenen3, Pamela Wiener1* and Rob Ogden4*

Author Affiliations

1 The Roslin Institute and (Royal) Dick School of Veterinary Studies, University of Edinburgh, Easter Bush, Midlothian, EH25 9RG, UK

2 MRC Human Genetics Unit, Western General Hospital, Crewe Road, Edinburgh, EH4 2XU, UK

3 Animal Breeding and Genomics Centre, Wageningen University, Wageningen, The Netherlands

4 Wildgenes Laboratory, Royal Zoological Society of Scotland, Edinburgh EH12 6TS, Scotland, UK

5 Scotland's Rural College, The Roslin Institute Building, , Easter Bush, Midlothian, EH25 9RG, UK

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BMC Genomics 2012, 13:580  doi:10.1186/1471-2164-13-580

Published: 15 November 2012

Additional files

Additional file 1:

Table S1. The top 96 informative markers present on the 96-plex assay listed in decreasing order of genetic informativeness. Table S2. The posterior probability any individual with log(LR) > 2 originates from the claimed breed. Figure S1. Level of linkage disequilibrium (LD), measured using r2, between the 25 markers on chromosome 8 for each pig breed. r2 represents the correlation of allele frequencies between two loci such that SNPs in complete LD have a value of 1. The darker the colour, the higher the LD with white indicating no LD between a pair of SNPs. Figure S2. Plot of the likelihood output of BAPS with increasing K value.

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