Genomics Inform.  2011 Dec;9(4):143-151.

Directed Causal Network Construction Using Linkage Analysis with Metabolic Syndrome-Related Expression Quantitative Traits

Affiliations
  • 1Graduate School of Public Health, Seoul National University, Seoul 151-742, Korea.
  • 2Institute of Health & Environment, Seoul National University, Seoul 151-742, Korea.
  • 3Division of Epidemic Intelligence Service, Korea Centers for Disease Control and Prevention, Osong 363-951, Korea.

Abstract

In this study, we propose a novel, intuitive method of constructing an expression quantitative trait (eQT) network that is related to the metabolic syndrome using LOD scores and peak loci for selected eQTs, based on the concept of gene-gene interactions. We selected 49 eQTs that were related to insulin resistance. A variance component linkage analysis was performed to explore the expression loci of each of the eQTs. The linkage peak loci were investigated, and the "support zone" was defined within boundaries of an LOD score of 0.5 from the peak. If one gene was located within the "support zone" of the peak loci for the eQT of another gene, the relationship was considered as a potential "directed causal pathway" from the former to the latter gene. SNP markers under the linkage peaks or within the support zone were searched for in the database to identify the genes at the loci. Two groups of gene networks were formed separately around the genes IRS2 and UGCGL2. The findings indicated evidence of networks between genes that were related to the metabolic syndrome. The use of linkage analysis enabled the construction of directed causal networks. This methodology showed that characterizing and locating eQTs can provide an effective means of constructing a genetic network.

Keyword

genetic network; expression quantitative trait; linkage analysis; metabolic syndrome

MeSH Terms

Gene Regulatory Networks
Insulin Resistance
Lod Score
Full Text Links
  • GNI
Actions
Cited
CITED
export Copy
Close
Share
  • Twitter
  • Facebook
Similar articles
Copyright © 2024 by Korean Association of Medical Journal Editors. All rights reserved.     E-mail: koreamed@kamje.or.kr