title: Local and global ancestry inference and applications to genetic association analysis for admixed populations.
abstract: Genetic association studies in recently admixed populations offer exciting opportunities to identify novel variants underlying phenotypic diversity. At the same time, genetic heterogeneity resulting from population admixture has to be accounted for to ensure validity of association tests. The whole-genome sequence data and the genome-wide single-nucleotide polymorphism chip data for Mexican American individuals provided by Genetic Analysis Workshop 18 (GAW18) presents a unique opportunity to evaluate and compare methods for the statistical analysis of admixed genetic data. We summarize here the five contributions from the GAW18 working group on admixture mapping and adjusting for admixture. Although group members considered a variety of research topics, the general theme was inference and consideration of ancestry admixture in genetic analyses. The topics considered can be grouped into three categories: (1) global and local ancestry inference and estimation, (2) association and admixture mapping, and (3) genotype imputation in admixed samples. We describe the approaches that were used and the most relevant findings from each contribution. We also provide insight into the strengths and limitations of the state-of-the-art methods considered for genetic analyses in admixed populations.
authors.affiliation: Department of Biostatistics, University of Washington, Seattle, Washington, United States of America.
authors.forename: Timothy A
authors.initials: TA
authors.lastname: Thornton
authors.forename: Justo Lorenzo
authors.initials: JL
authors.lastname: Bermejo
mesh_terms: D001794:Blood Pressure / Q000235:genetics; D002874:Chromosome Mapping; D056726:Genetic Association Studies; D018740:Genetic Heterogeneity; D005828:Genetics, Population; D005838:Genotype; D006801:Humans; D017058:Mexican Americans / Q000235:genetics; D010375:Pedigree; D020641:Polymorphism, Single Nucleotide; D025341:Principal Component Analysis; D017422:Sequence Analysis, DNA
keywords: GWAS; admixture; association; genotype imputation; local ancestry
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