Jul 7, 2016

Joint Genotype- and Ancestry-based Genome-wide Association Studies in Admixed Populations

BioRxiv : the Preprint Server for Biology
Piotr SzulcHua Tang

Abstract

In Genome-Wide Association Studies (GWAS) genetic loci that influence complex traits are localized by inspecting associations between genotypes of genetic markers and the values of the trait of interest. On the other hand Admixture Mapping, which is performed in case of populations consisting of a recent mix of two ancestral groups, relies on the ancestry information at each locus (locus-specific ancestry).Recently it has been proposed to jointly model genotype and locus-specific ancestry within the framework of single marker tests. Here we extend this approach for population-based GWAS in the direction of multi marker models. A modified version of the Bayesian Information Criterion is developed for building a multi-locus model, which accounts for the differential correlation structure due to linkage disequilibrium and admixture linkage disequilibrium. Simulation studies and a real data example illustrate the advantages of this new approach compared to single-marker analysis and modern model selection strategies based on separately analyzing genotype and ancestry data, as well as to single-marker analysis combining genotypic and ancestry information. Depending on the signal strength our procedure automatically chooses whether g...Continue Reading

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Mentioned in this Paper

Biological Markers
Establishment and Maintenance of Localization
Genome-Wide Association Study
Dysequilibrium Syndrome
Genetic Markers
Event Criterion
Structure
Simulation
Cluster admixed alloy
Analysis

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