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Integrative analysis of gene–environment interactions under a multi‐response partially linear varying coefficient model
Author(s) -
Wu Cen,
Cui Yuehua,
Ma Shuangge
Publication year - 2014
Publication title -
statistics in medicine
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.996
H-Index - 183
eISSN - 1097-0258
pISSN - 0277-6715
DOI - 10.1002/sim.6287
Subject(s) - homogeneity (statistics) , computer science , coordinate descent , linear model , linear regression , econometrics , mathematics , machine learning
Consider the integrative analysis of genetic data with multiple correlated response variables. The goal is to identify important gene–environment (G × E) interactions along with main gene and environment effects that are associated with the responses. The homogeneity and heterogeneity models can be adopted to describe the genetic basis of multiple responses. To accommodate possible nonlinear effects of some environment effects, a multi‐response partially linear varying coefficient model is assumed. Penalization is adopted for marker selection. The proposed penalization method can select genetic variants with G × E interactions, no G × E interactions, and no main effects simultaneously. It adopts different penalties to accommodate the homogeneity and heterogeneity models. The proposed method can be effectively computed using a coordinate descent algorithm. Simulation study and the analysis of Health Professionals Follow‐up Study, which has two correlated continuous traits, SNP measurements and multiple environment effects, show superior performance of the proposed method over its competitors. Copyright © 2014 John Wiley & Sons, Ltd.