Prediction of unobserved single nucleotide polymorphism genotypes of Jersey cattle using reference panels and population-based imputation algorithms

Frequency distribution of the proportion of masked SNP genotypes on chromosome 15 (1,377 total SNP) that were imputed correctly in future study samples comprising 604 US Jersey cattle, using reference panels comprising 2,542 animals of the same breed with the IMPUTE 2.0 (40 conditioning states; B. Howie and J. Marchini; Department of Statistics, University of Oxford, UK) or fastPHASE 1.2 (32 haplotype clusters; P. Scheet and M. Stevens; University of Washington TechTransfer Digital Ventures Program, Seattle, WA) population-based algorithms.