CoAIMs: A Cost-Effective Panel of Ancestry Informative Markers for Determining Continental OriginsReport as inadecuate




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Background

Genetic ancestry is known to impact outcomes of genotype-phenotype studies that are designed to identify risk for common diseases in human populations. Failure to control for population stratification due to genetic ancestry can significantly confound results of disease association studies. Moreover, ancestry is a critical factor in assessing lifetime risk of disease, and can play an important role in optimizing treatment. As modern medicine moves towards using personal genetic information for clinical applications, it is important to determine genetic ancestry in an accurate, cost-effective and efficient manner. Self-identified race is a common method used to track and control for population stratification; however, social constructs of race are not necessarily informative for genetic applications. The use of ancestry informative markers AIMs is a more accurate method for determining genetic ancestry for the purposes of population stratification.

Methodology-Principal Findings

Here we introduce a novel panel of 36 microsatellite MSAT AIMs that determines continental admixture proportions. This panel, which we have named Continental Ancestry Informative Markers or CoAIMs, consists of MSAT AIMs that were chosen based upon their measure of genetic variance Fst, allele frequencies and their suitability for efficient genotyping. Genotype analysis using CoAIMs along with a Bayesian clustering method STRUCTURE is able to discern continental origins including Europe-Middle East Caucasians, East Asia, Africa, Native America, and Oceania. In addition to determining continental ancestry for individuals without significant admixture, we applied CoAIMs to ascertain admixture proportions of individuals of self declared race.

Conclusion-Significance

CoAIMs can be used to efficiently and effectively determine continental admixture proportions in a sample set. The CoAIMs panel is a valuable resource for genetic researchers performing case-control genetic association studies, as it can control for the confounding effects of population stratification. The MSAT-based approach used here has potential for broad applicability as a cost effective tool toward determining admixture proportions.



Author: Eric R. Londin , Margaret A. Keller, Cathleen Maista, Gretchen Smith, Laura A. Mamounas, Ran Zhang, Steven J. Madore, Katrina Gwi

Source: http://plos.srce.hr/



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