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Bayesian selection and clustering of polymorphisms in functionally related genes

Publication ,  Journal Article
Dunson, DB; Herring, AH; Engel, SM
Published in: Journal of the American Statistical Association
June 1, 2008

In epidemiologic studies, there is often interest in assessing the relationship between polymorphisms in functionally related genes and a health outcome. For each candidate gene, single nucleotide polymorphism (SNP) data are collected at a number of locations, resulting in a large number of possible genotypes. Because instabilities can result in analyses that include all the SNPs, dimensionality is typically reduced by conducting single SNP analyses or attempting to identify haplotypes. This article proposes an alternative Bayesian approach for reducing dimensionality. A multilevel Dirichlet process prior is used for the distribution of the SNP-specific regression coefficients within genes, incorporating a variable selection-type mixture structure to allow SNPs with no effect. This structure allows simultaneous selection of important SNPs and soft clustering of SNPs having similar impact on the health outcome. The methods are illustrated using data from a study of pro- and anti-inflammatory cytokine polymorphisms and spontaneous preterm birth.

Duke Scholars

Published In

Journal of the American Statistical Association

DOI

ISSN

0162-1459

Publication Date

June 1, 2008

Volume

103

Issue

482

Start / End Page

534 / 546

Related Subject Headings

  • Statistics & Probability
  • 4905 Statistics
  • 3802 Econometrics
  • 1603 Demography
  • 1403 Econometrics
  • 0104 Statistics
 

Citation

APA
Chicago
ICMJE
MLA
NLM
Dunson, D. B., Herring, A. H., & Engel, S. M. (2008). Bayesian selection and clustering of polymorphisms in functionally related genes. Journal of the American Statistical Association, 103(482), 534–546. https://doi.org/10.1198/016214507000000554
Dunson, D. B., A. H. Herring, and S. M. Engel. “Bayesian selection and clustering of polymorphisms in functionally related genes.” Journal of the American Statistical Association 103, no. 482 (June 1, 2008): 534–46. https://doi.org/10.1198/016214507000000554.
Dunson DB, Herring AH, Engel SM. Bayesian selection and clustering of polymorphisms in functionally related genes. Journal of the American Statistical Association. 2008 Jun 1;103(482):534–46.
Dunson, D. B., et al. “Bayesian selection and clustering of polymorphisms in functionally related genes.” Journal of the American Statistical Association, vol. 103, no. 482, June 2008, pp. 534–46. Scopus, doi:10.1198/016214507000000554.
Dunson DB, Herring AH, Engel SM. Bayesian selection and clustering of polymorphisms in functionally related genes. Journal of the American Statistical Association. 2008 Jun 1;103(482):534–546.
Journal cover image

Published In

Journal of the American Statistical Association

DOI

ISSN

0162-1459

Publication Date

June 1, 2008

Volume

103

Issue

482

Start / End Page

534 / 546

Related Subject Headings

  • Statistics & Probability
  • 4905 Statistics
  • 3802 Econometrics
  • 1603 Demography
  • 1403 Econometrics
  • 0104 Statistics