publication . Article . Other literature type . 2006

Principal components analysis corrects for stratification in genome-wide association studies

Price, Alkes L; Patterson, Nick J; Plenge, Robert M; Weinblatt, Michael E; Shadick, Nancy A; Reich, David;
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  • Published: 23 Jul 2006 Journal: Nature Genetics, volume 38, pages 904-909 (issn: 1061-4036, eissn: 1546-1718, Copyright policy)
  • Publisher: Springer Science and Business Media LLC
Abstract
Population stratification—allele frequency differences between cases and controls due to systematic ancestry differences—can cause spurious associations in disease studies. We describe a method that enables explicit detection and correction of population stratification on a genome-wide scale. Our method uses principal components analysis to explicitly model ancestry differences between cases and controls. The resulting correction is specific to a candidate marker’s variation in frequency across ancestral populations, minimizing spurious associations while maximizing power to detect true associations. Our simple, efficient approach can easily be applied to diseas...
Subjects
free text keywords: Spurious relationship, Imputation (genetics), Population stratification, Genetic association, Allele frequency, Genetics, Genome-wide association study, Ancestry-informative marker, Population, education.field_of_study, education, Biology
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