Allele-specific expression reveals interactions between genetic variation and environment
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Updated: Mar 2, 2026

An Allele-specific Gene Expression Assay to Test the Functional Basis of Genetic Associations
Published on: November 3, 2010
David A Knowles1,2, Joe R Davis1, Hilary Edgington3,4
1Department of Genetics, Stanford University School of Medicine, Stanford, California, USA.
Abstract:
Identifying interactions between genetics and the environment (GxE) remains challenging. We have developed EAGLE, a hierarchical Bayesian model for identifying GxE interactions based on associations between environmental variables and allele-specific expression. Combining whole-blood RNA-seq with extensive environmental annotations collected from 922 human individuals, we identified 35 GxE interactions, compared with only four using standard GxE interaction testing. EAGLE provides new opportunities for researchers to identify GxE interactions using functional genomic data.
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