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Statistical Applications in Genetics and Molecular Biology

Editor-in-Chief: Sanguinetti, Guido

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1544-6115
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Volume 11, Issue 6

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Hierarchical Shrinkage Priors and Model Fitting for High-dimensional Generalized Linear Models

Nengjun Yi / Shuangge Ma
Published Online: 2012-11-26 | DOI: https://doi.org/10.1515/1544-6115.1803

Abstract

Genetic and other scientific studies routinely generate very many predictor variables, which can be naturally grouped, with predictors in the same groups being highly correlated. It is desirable to incorporate the hierarchical structure of the predictor variables into generalized linear models for simultaneous variable selection and coefficient estimation. We propose two prior distributions: hierarchical Cauchy and double-exponential distributions, on coefficients in generalized linear models. The hierarchical priors include both variable-specific and group-specific tuning parameters, thereby not only adopting different shrinkage for different coefficients and different groups but also providing a way to pool the information within groups. We fit generalized linear models with the proposed hierarchical priors by incorporating flexible expectation-maximization (EM) algorithms into the standard iteratively weighted least squares as implemented in the general statistical package R. The methods are illustrated with data from an experiment to identify genetic polymorphisms for survival of mice following infection with Listeria monocytogenes. The performance of the proposed procedures is further assessed via simulation studies. The methods are implemented in a freely available R package BhGLM (http://www.ssg.uab.edu/bhglm/).

Keywords: adaptive lasso; Bayesian inference; generalized linear model; genetic polymorphisms; grouped variables; hierarchical model; high-dimensional data; shrinkage prior

About the article

Published Online: 2012-11-26


Citation Information: Statistical Applications in Genetics and Molecular Biology, Volume 11, Issue 6, ISSN (Online) 1544-6115, DOI: https://doi.org/10.1515/1544-6115.1803.

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