Journal Article

DZNE-2020-02433

http://join2-wiki.gsi.de/foswiki/pub/Main/Artwork/join2_logo100x88.png A Bayesian approach to genetic association studies with family-based designs.

Naylor, M. G. (Corresponding author) ; Weiss, S. T. ; Lange, C. (Last author)DZNE*

2010
Wiley-Liss New York, NY

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Please use a persistent id in citations: doi:10.1002/gepi.20513

Abstract: For genome-wide association studies with family-based designs, we propose a Bayesian approach. We show that standard transmission disequilibrium test and family-based association test statistics can naturally be implemented in a Bayesian framework, allowing flexible specification of the likelihood and prior odds. We construct a Bayes factor conditional on the offspring phenotype and parental genotype data and then use the data we conditioned on to inform the prior odds for each marker. In the construction of the prior odds, the evidence for association for each single marker is obtained at the population-level by estimating its genetic effect size by fitting the conditional mean model. Since such genetic effect size estimates are statistically independent of the effect size estimation within the families, the actual data set can inform the construction of the prior odds without any statistical penalty. In contrast to Bayesian approaches that have recently been proposed for genome-wide association studies, our approach does not require assumptions about the genetic effect size; this makes the proposed method entirely data-driven. The power of the approach was assessed through simulation. We then applied the approach to a genome-wide association scan to search for associations between single nucleotide polymorphisms and body mass index in the Childhood Asthma Management Program data.

Keyword(s): Asthma: genetics (MeSH) ; Bayes Theorem (MeSH) ; Body Mass Index (MeSH) ; Child (MeSH) ; Genome-Wide Association Study: methods (MeSH) ; Genotype (MeSH) ; Humans (MeSH) ; Linkage Disequilibrium (MeSH) ; Models, Genetic (MeSH) ; Models, Statistical (MeSH) ; Phenotype (MeSH) ; Polymorphism, Single Nucleotide (MeSH)

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Contributing Institute(s):

1. U T4 Researchers - Bonn (U T4 Researchers - Bonn)

Research Program(s):

1. 345 - Population Studies and Genetics (POF3-345) (POF3-345)

Appears in the scientific report 2010

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Database coverage:
; BIOSIS Previews ; Clarivate Analytics Master Journal List ; Current Contents - Life Sciences ; IF < 5 ; JCR ; NCBI Molecular Biology Database ; Nationallizenz ; SCOPUS ; Science Citation Index ; Science Citation Index Expanded ; Web of Science Core Collection

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