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Generalized admixture mapping for complex traits.

Publication ,  Journal Article
Zhu, B; Ashley-Koch, AE; Dunson, DB
Published in: G3 (Bethesda)
July 8, 2013

Admixture mapping is a popular tool to identify regions of the genome associated with traits in a recently admixed population. Existing methods have been developed primarily for identification of a single locus influencing a dichotomous trait within a case-control study design. We propose a generalized admixture mapping (GLEAM) approach, a flexible and powerful regression method for both quantitative and qualitative traits, which is able to test for association between the trait and local ancestries in multiple loci simultaneously and adjust for covariates. The new method is based on the generalized linear model and uses a quadratic normal moment prior to incorporate admixture prior information. Through simulation, we demonstrate that GLEAM achieves lower type I error rate and higher power than ANCESTRYMAP both for qualitative traits and more significantly for quantitative traits. We applied GLEAM to genome-wide SNP data from the Illumina African American panel derived from a cohort of black women participating in the Healthy Pregnancy, Healthy Baby study and identified a locus on chromosome 2 associated with the averaged maternal mean arterial pressure during 24 to 28 weeks of pregnancy.

Duke Scholars

Published In

G3 (Bethesda)

DOI

EISSN

2160-1836

Publication Date

July 8, 2013

Volume

3

Issue

7

Start / End Page

1165 / 1175

Location

England

Related Subject Headings

  • Quantitative Trait Loci
  • Pregnancy
  • Models, Theoretical
  • Linkage Disequilibrium
  • Humans
  • Genome, Human
  • Genetics, Population
  • Genetic Association Studies
  • Female
  • Chromosome Mapping
 

Citation

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Zhu, B., Ashley-Koch, A. E., & Dunson, D. B. (2013). Generalized admixture mapping for complex traits. G3 (Bethesda), 3(7), 1165–1175. https://doi.org/10.1534/g3.113.006478
Zhu, Bin, Allison E. Ashley-Koch, and David B. Dunson. “Generalized admixture mapping for complex traits.G3 (Bethesda) 3, no. 7 (July 8, 2013): 1165–75. https://doi.org/10.1534/g3.113.006478.
Zhu B, Ashley-Koch AE, Dunson DB. Generalized admixture mapping for complex traits. G3 (Bethesda). 2013 Jul 8;3(7):1165–75.
Zhu, Bin, et al. “Generalized admixture mapping for complex traits.G3 (Bethesda), vol. 3, no. 7, July 2013, pp. 1165–75. Pubmed, doi:10.1534/g3.113.006478.
Zhu B, Ashley-Koch AE, Dunson DB. Generalized admixture mapping for complex traits. G3 (Bethesda). 2013 Jul 8;3(7):1165–1175.

Published In

G3 (Bethesda)

DOI

EISSN

2160-1836

Publication Date

July 8, 2013

Volume

3

Issue

7

Start / End Page

1165 / 1175

Location

England

Related Subject Headings

  • Quantitative Trait Loci
  • Pregnancy
  • Models, Theoretical
  • Linkage Disequilibrium
  • Humans
  • Genome, Human
  • Genetics, Population
  • Genetic Association Studies
  • Female
  • Chromosome Mapping