Alan J. Mileham

This study evaluates sequencing strategies for whole-genome imputation using hybrid peeling, finding that 2% of the population sequenced at 2x coverage provides high accuracy.

This study demonstrates high accuracy of whole-genome sequence imputation in large livestock populations using hybrid peeling, with median individual-wise correlation of 0.97.

This study simulates strategies for using surrogate sire technology to enhance genetic merit in livestock breeding, finding a three-stage approach most effective for maximizing genetic gain.

The paper shows that index hopping and reference allele bias have minimal impact on genotype calls from low-coverage sequencing, but pruning low-support haplotypes introduces a significant reference allele bias.