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United States Department of Agriculture

Agricultural Research Service

Research Project: IMPROVING GENETIC PREDICTIONS FOR DAIRY ANIMALS USING PHENOTYPIC AND GENOMIC INFORMATION Title: SNP panels/Imputation

Authors
item Wiggans, George
item Miller, Stephen -

Submitted to: Interbull Annual Meeting Proceedings
Publication Type: Proceedings
Publication Acceptance Date: April 4, 2011
Publication Date: N/A

Technical Abstract: Participants from thirteen countries discussed services that Interbull can perform or recommendations that Interbull can make to promote harmonization and assist member countries in improving their genomic evaluations in regard to SNP panels and imputation. The panel recommended: A mechanism to share sequence data should be developed. Interbull could define the objective and monitor the service, which would be provided by a group experienced with full sequence data. A benchmarking trial for the usefulness of the different imputation software methods should be considered. Interbull should develop guidelines for editing SNP data. Interbull could host a database to compile problem SNPs from multiple studies. Knowledge of SNP performance across studies would enable more effective editing of SNPs prior to analysis. The bovine community should take some responsibility for the SNP map. Interbull could play a role in making genotypes available to incorporate into national evaluations. In these ways, Interbull can assist national evaluation centers by hosting or sponsoring the sharing of genotypes and full-sequence data, establishing editing standards for SNP quality along with a database of problem SNPs, and providing data sets to test validation methods.

Last Modified: 10/22/2014
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