GCTA: a tool for genome-wide complex trait analysis

Yang, Jian, Lee, S. Hong, Goddard, Michael E. and Visscher, Peter M. (2011) GCTA: a tool for genome-wide complex trait analysis. American Journal of Human Genetics, 88 1: 76-82. doi:10.1016/j.ajhg.2010.11.011

Author Yang, Jian
Lee, S. Hong
Goddard, Michael E.
Visscher, Peter M.
Title GCTA: a tool for genome-wide complex trait analysis
Journal name American Journal of Human Genetics   Check publisher's open access policy
ISSN 0002-9297
Publication date 2011-01
Sub-type Article (original research)
DOI 10.1016/j.ajhg.2010.11.011
Volume 88
Issue 1
Start page 76
End page 82
Total pages 7
Place of publication Cambridge, MA, United States
Publisher Cell Press
Language eng
Abstract For most human complex diseases and traits, SNPs identified by genome-wide association studies (GWAS) explain only a small fraction of the heritability. Here we report a user-friendly software tool called genome-wide complex trait analysis (GCTA), which was developed based on a method we recently developed to address the “missing heritability” problem. GCTA estimates the variance explained by all the SNPs on a chromosome or on the whole genome for a complex trait rather than testing the association of any particular SNP to the trait. We introduce GCTA's five main functions: data management, estimation of the genetic relationships from SNPs, mixed linear model analysis of variance explained by the SNPs, estimation of the linkage disequilibrium structure, and GWAS simulation. We focus on the function of estimating the variance explained by all the SNPs on the X chromosome and testing the hypotheses of dosage compensation. The GCTA software is a versatile tool to estimate and partition complex trait variation with large GWAS data sets.
Q-Index Code C1
Q-Index Status Provisional Code
Institutional Status Non-UQ

Document type: Journal Article
Sub-type: Article (original research)
Collection: Queensland Brain Institute Publications
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