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bioRxiv · 10.1101/2020.05.31.122549

GxEsum: genotype-by-environment interaction model based on summary statistics

Shin, J.·Lee, S. H.
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Abstract

Genetic variation in response to the environment is fundamental in the biology of complex traits and diseases, i.e. genotype-by-environment interaction (GxE). However, existing methods are computationally demanding and infeasible to handle biobank-scale data. Here we introduce GxEsum, a method for estimating the phenotypic variance explained by genome-wide GxE based on GWAS summary statistics. Through comprehensive simulations and analysis of UK Biobank with 288,837 individuals, we show that GxEsum can handle a large-scale biobank dataset with controlled type I error rates and unbiased GxE estimates, and its computational efficiency can be hundreds of times higher than existing GxE methods.

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Shin, J., Lee, S. H.. 2020-06-01. GxEsum: genotype-by-environment interaction model based on summary statistics. https://doi.org/10.1101/2020.05.31.122549

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