Comparison of Strategies to Detect Epistasis from eQTL Data.

Détails

Ressource 1Télécharger: BIB_AD05BDDCB787.P001.pdf (300.57 [Ko])
Etat: Public
Version: de l'auteur
ID Serval
serval:BIB_AD05BDDCB787
Type
Article: article d'un périodique ou d'un magazine.
Collection
Publications
Titre
Comparison of Strategies to Detect Epistasis from eQTL Data.
Périodique
PLoS One
Auteur(s)
Kapur K., Schüpbach T., Xenarios I., Kutalik Z., Bergmann S.
ISSN
1932-6203 (Electronic)
ISSN-L
1932-6203
Statut éditorial
Publié
Date de publication
2011
Volume
6
Numéro
12
Pages
e28415
Langue
anglais
Notes
Publication types: Journal ArticlePublication Status: ppublish
Résumé
Genome-wide association studies have been instrumental in identifying genetic variants associated with complex traits such as human disease or gene expression phenotypes. It has been proposed that extending existing analysis methods by considering interactions between pairs of loci may uncover additional genetic effects. However, the large number of possible two-marker tests presents significant computational and statistical challenges. Although several strategies to detect epistasis effects have been proposed and tested for specific phenotypes, so far there has been no systematic attempt to compare their performance using real data. We made use of thousands of gene expression traits from linkage and eQTL studies, to compare the performance of different strategies. We found that using information from marginal associations between markers and phenotypes to detect epistatic effects yielded a lower false discovery rate (FDR) than a strategy solely using biological annotation in yeast, whereas results from human data were inconclusive. For future studies whose aim is to discover epistatic effects, we recommend incorporating information about marginal associations between SNPs and phenotypes instead of relying solely on biological annotation. Improved methods to discover epistatic effects will result in a more complete understanding of complex genetic effects.
Pubmed
Web of science
Open Access
Oui
Création de la notice
12/01/2012 16:02
Dernière modification de la notice
20/08/2019 15:17
Données d'usage