Bayesian Analysis

Bayesian Sparse Multivariate Regression with Asymmetric Nonlocal Priors for Microbiome Data Analysis

Kurtis Shuler, Marilou Sison-Mangus, and Juhee Lee

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Abstract

We propose a Bayesian sparse multivariate regression method to model the relationship between microbe abundance and environmental factors for microbiome data. We model abundance counts of operational taxonomic units (OTUs) with a negative binomial distribution and relate covariates to the counts through regression. Extending conventional nonlocal priors, we construct asymmetric nonlocal priors for regression coefficients to efficiently identify relevant covariates and their effect directions. We build a hierarchical model to facilitate pooling of information across OTUs that produces parsimonious results with improved accuracy. We present simulation studies that compare variable selection performance under the proposed model to those under Bayesian sparse regression models with asymmetric and symmetric local priors and two frequentist models. The simulations show the proposed model identifies important covariates and yields coefficient estimates with favorable accuracy compared with the alternatives. The proposed model is applied to analyze an ocean microbiome dataset collected over time to study the association of harmful algal bloom conditions with microbial communities.

Article information

Source
Bayesian Anal., Advance publication (2018), 20 pages.

Dates
First available in Project Euclid: 19 June 2019

Permanent link to this document
https://projecteuclid.org/euclid.ba/1560909810

Digital Object Identifier
doi:10.1214/19-BA1164

Keywords
count data harmful algal bloom microbiome negative binomial next-generation sequencing nonlocal prior stochastic search variable selection

Rights
Creative Commons Attribution 4.0 International License.

Citation

Shuler, Kurtis; Sison-Mangus, Marilou; Lee, Juhee. Bayesian Sparse Multivariate Regression with Asymmetric Nonlocal Priors for Microbiome Data Analysis. Bayesian Anal., advance publication, 19 June 2019. doi:10.1214/19-BA1164. https://projecteuclid.org/euclid.ba/1560909810


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