A total of 290,449 SNPs were used for this phasing study. Each SNP had a genotyping yield greater than 95% on all four different chip types that were used to generate the genotypes and had a Hardy-Weinberg statistic within and across chip types that was not significant at the P = 0.0001 level. A few additional markers were excluded because they were monomorphic or having allele frequencies that vary by over 2% across the chip types. In all, 6.5% (n=20,220) of the 310,669 SNPs that were common to all the chip types were excluded from the study.
