Campus Units

Statistics

Document Type

Article

Publication Version

Accepted Manuscript

Publication Date

12-2015

Journal or Book Title

Journal of Agricultural, Biological and Environmental Statistics

Volume

20

Issue

4

First Page

614

Last Page

628

DOI

10.1007/s13253-015-0230-5

Abstract

An important type of heterosis, known as hybrid vigor, refers to the enhancements in the phenotype of hybrid progeny relative to their inbred parents. Although hybrid vigor is extensively utilized in agriculture, its molecular basis is still largely unknown. In an effort to understand phenotypic heterosis at the molecular level, researchers are measuring transcript abundance levels of thousands of genes in parental inbred lines and their hybrid offspring using RNA sequencing (RNA-seq) technology. The resulting data allow researchers to search for evidence of gene expression heterosis as one potential molecular mechanism underlying heterosis of agriculturally important traits. The null hypotheses of greatest interest in testing for gene expression heterosis are composite null hypotheses that are difficult to test with standard statistical approaches for RNA-seq analysis. To address these shortcomings, we develop a hierarchical negative binomial model and draw inferences using a computationally tractable empirical Bayes approach to inference. We demonstrate improvements over alternative methods via a simulation study based on a maize experiment and then analyze that maize experiment with our newly proposed methodology. This article has supplementary material online.

Comments

This is a manuscript of an article from the Journal of Agricultural, Biological and Environmental Statistics 20 (2015): 614, doi: 10.1007/s13253-015-0230-5. Posted with permission.

Copyright Owner

International Biometric Society

Language

en

File Format

application/pdf

Published Version

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