Assessment of alternative genotyping strategies to maximize imputation accuracy at minimal cost.

ABSTRACT:

Background

Commercial breeding programs seek to maximise the rate of genetic gain while minimizing the costs of attaining that gain. Genomic information offers great potential to increase rates of genetic gain but it is expensive to generate. Low-cost genotyping strategies combined with genotype imputation offer dramatically reduced costs. However, both the costs and accuracy of imputation of these strategies are highly sensitive to several factors. The objective of this paper was to explore the cost and imputation accuracy of several alternative genotyping strategies in pedigreed populations.

Methods

Pedigree and genotype data from a commercial pig population were used. Several alternative genotyping strategies were explored. The strategies differed in the density of genoty

SUBMITTER: Huang Y 

PROVIDER: S-EPMC3436735 | biostudies-literature | 2012 Jul

REPOSITORIES: biostudies-literature