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Statistics in Medicine
Article . 2012 . Peer-reviewed
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zbMATH Open
Article . 2013
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Boosting for detection of gene–environment interactions

Boosting for detection of gene-environment interactions
Authors: Pashova, H.; LeBlanc, M.; Kooperberg, C.;

Boosting for detection of gene–environment interactions

Abstract

In genetic association studies, it is typically thought that genetic variants and environmental variables jointly will explain more of the inheritance of a phenotype than either of these two components separately. Traditional methods to identify gene–environment interactions typically consider only one measured environmental variable at a time. However, in practice, multiple environmental factors may each be imprecise surrogates for the underlying physiological process that actually interacts with the genetic factors. In this paper, we develop a variant ofL2boosting that is specifically designed to identify combinations of environmental variables that jointly modify the effect of a gene on a phenotype. Because the effect modifiers might have a small signal compared with the main effects, working in a space that is orthogonal to the main predictors allows us to focus on the interaction space. In a simulation study that investigates some plausible underlying model assumptions, our method outperforms the least absolute shrinkage and selection and Akaike Information Criterion and Bayesian Information Criterion model selection procedures as having the lowest test error. In an example for the Women's Health Initiative‐Population Architecture using Genomics and Epidemiology study, the dedicated boosting method was able to pick out two single‐nucleotide polymorphisms for which effect modification appears present. The performance was evaluated on an independent test set, and the results are promising. Copyright © 2012 John Wiley & Sons, Ltd.

Keywords

Clinical Trials as Topic, interaction, Bayes Theorem, WHI, Polymorphism, Single Nucleotide, United States, Applications of statistics to biology and medical sciences; meta analysis, gene-environment interaction, Phenotype, \(L_2\) boosting, Humans, Women's Health, Female, Gene-Environment Interaction, effect modification, Genetic Association Studies, Demography

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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
5
Average
Average
Average
bronze
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