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Entropy 2016, 18(4), 91; doi:10.3390/e18040091

Bayesian Genetic Association Test when Secondary Phenotypes Are Available Only in the Case Group

1,†
and
2,†,*
1
Department of Statistics, Kyungpook National University, Daegu 41566, Korea
2
Department of Statistics, Yeungnam University, Gyeongsan 38541, Korea
These authors contributed equally to this work.
*
Author to whom correspondence should be addressed.
Academic Editor: Raúl Alcaraz Martínez
Received: 14 September 2015 / Revised: 3 December 2015 / Accepted: 7 December 2015 / Published: 6 April 2016
(This article belongs to the Section Information Theory)
View Full-Text   |   Download PDF [292 KB, uploaded 6 April 2016]   |  

Abstract

In many case-control genetic association studies, a secondary phenotype that may have common genetic factors with disease status can be identified. When information on the secondary phenotype is available only for the case group due to cost and different data sources, a fitting linear regression model ignoring supplementary phenotype data may provide limited knowledge regarding genetic association. We set up a joint model and use a Bayesian framework to estimate and test the effect of genetic covariates on disease status considering the secondary phenotype as an instrumental variable. The application of our proposed procedure is demonstrated through the rheumatoid arthritis data provided by the 16th Genetic Analysis Workshop. View Full-Text
Keywords: genome-wide association study; Bayesian testing; secondary phenotype; Bayes factor; case-control design; incomplete data genome-wide association study; Bayesian testing; secondary phenotype; Bayes factor; case-control design; incomplete data
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This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. (CC BY 4.0).

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Kim, Y.; Kwak, M. Bayesian Genetic Association Test when Secondary Phenotypes Are Available Only in the Case Group. Entropy 2016, 18, 91.

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