Based on LAMP ancestry estimates using all autosomal SNPs, the EA set showed less than 1% Yoruban admixture (mean= 0.998, range: 0.944-1, STD = 0.005), whereas the AA set showed almost 19% European admixture (mean = 0.188, range: 0.0-1, STD = 0.124). Furthermore, LAMP ancestry estimates including 3053 EA and AA subjects were significantly correlated with estimates generated with the more traditional STRUCTURE method (r = 0.999, p < 0.001). Including parental allele frequencies of HGDP subjects instead of HapMap subjects did not influence ancestry estimates (r = 1.0, p < 0.001).
