Bias and standard error (SE). Two sub-populations of 500 individuals each, Fst = 0.01, simulated log additive odds ratio of 1.2. Bias was computed as the estimated effect minus the true simulated beta. For the non-structured phenotype, each sub-population had a population prevalence of disease of 0.1. For the structured phenotype the population prevalence of disease was 0.16 in sub-population 1 and 0.04 in sub-population 2. The non-structured SNP had a frequency of 0.2 in each population, and the structured SNP had a frequency of 0.1 in sub-population 1 and 0.3 in sub-population 2. None indicates no PCs were adjusted for in the model and Pop indicates that the known population was adjusted for in the model.
Peloso and Lunetta BMC Genetics 2011 12:64 doi:10.1186/1471-2156-12-64