• Record: found
  • Abstract: found
  • Article: not found

GCTA: a tool for genome-wide complex trait analysis.

American Journal of Human Genetics

Software, Quantitative Trait Loci, Polymorphism, Single Nucleotide, Models, Genetic, Male, Humans, methods, Genome-Wide Association Study, Genetic Linkage, Female, Dosage Compensation, Genetic, Computer Simulation, genetics, Chromosomes, Human, X

Read this article at

      There is no author summary for this article yet. Authors can add summaries to their articles on ScienceOpen to make them more accessible to a non-specialist audience.


      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.

      Related collections

      Author and article information



      Comment on this article