Population substructure is a well-known confounder in population-based case-control genetic studies, but its impact in family-based studies is unclear. We performed population substructure analysis using extended families of admixed population to evaluate power and Type I error in an association study framework. Our analysis shows that power was improved by 1.5% after principal components adjustment. Type I error was also reduced by 2.2% after adjusting for family substratification. The presence of population substructure was underscored by discriminant analysis, in which over 92% of individuals were correctly assigned to their actual family using only 100 principal components. This study demonstrates the importance of adjusting for population substructure in family-based studies of admixed populations.
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Mersha, T. B., Ding, L., He, H., Alexander, E. S., Zhang, X., Kurowski, B. G., … Fardo, D. W. (2015). Impact of Population Stratification on Family-Based Association in an Admixed Population. International Journal of Genomics, 2015. https://doi.org/10.1155/2015/501617