Award details

Whole genome SNP panels for genotyping experimental chicken lines - a vital BBSRC resource

Reference	BBS/E/I/00001367
Principal Investigator / Supervisor	Professor Peter Kaiser
Co-Investigators / Co-Supervisors	Dr Mark Fife
Institution	The Pirbright Institute
Department	The Pirbright Institute Department
Funding type	Research
Value (£)	140,960
Status	Completed
Type	Institute Project
Start date	12/05/2008
End date	11/11/2009
Duration	18 months

Abstract

The project will identify genome-wide panels of SNPs in each of our 10 chicken lines at IAH. Objective 1 - To genotype the 10 IAH chicken lines with 6144 SNPs and determine informative SNPs for each pairwise line comparison. When samples have been successfully genotyped each assay will be examined and analyzed for genotype calls based on call rate, heterozygosity and cluster score. Finally a panel of informative SNPs will be generated for all pairwise line combinations to ensure they are divergently monomorphic for each informative SNP. Objective 2 - Examine linkage disequilibrium within each line for all genotypes. Once all SNPs have all been genotyped we will analyze the haplotype structure for each line using Haploview. This will provide a measure of the non-random association of alleles at different loci on a chromosome-wide level. Objective 3 - Make the data available in a publicly accessible database. With collaborators at the Wellcome Trust Centre for Human Genetics (Oxford) we will set up a chicken SNP resource that will provide a public database of genome wide SNPs that will present a means of disseminating this resource to the scientific community, both within and beyond the BBSRC.

Summary

unavailable

Committee	Closed Committee - Genes & Developmental Biology (GDB)
Research Topics	Animal Health
Research Priority	X – Research Priority information not available
Research Initiative	X - not in an Initiative
Funding Scheme	X – not Funded via a specific Funding Scheme

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