title: Mixed Linear Model Approaches of Association Mapping for Complex Traits Based on Omics Variants.
abstract: Precise prediction for genetic architecture of complex traits is impeded by the limited understanding on genetic effects of complex traits, especially on gene-by-gene (GxG) and gene-by-environment (GxE) interaction. In the past decades, an explosion of high throughput technologies enables omics studies at multiple levels (such as genomics, transcriptomics, proteomics, and metabolomics). The analyses of large omics data, especially two-loci interaction analysis, are very time intensive. Integrating the diverse omics data and environmental effects in the analyses also remain challenges. We proposed mixed linear model approaches using GPU (Graphic Processing Unit) computation to simultaneously dissect various genetic effects. Analyses can be performed for estimating genetic main effects, GxG epistasis effects, and GxE environment interaction effects on large-scale omics data for complex traits, and for estimating heritability of specific genetic effects. Both mouse data analyses and Monte Carlo simulations demonstrated that genetic effects and environment interaction effects could be unbiasedly estimated with high statistical power by using the proposed approaches.
authors.affiliation: Institute of Bioinformatics, Zhejiang University, Hangzhou, China.
authors.forename: Fu-Tao
authors.initials: FT
authors.lastname: Zhang
authors.affiliation: Institute of Bioinformatics, Zhejiang University, Hangzhou, China.
authors.forename: Zhi-Hong
authors.initials: ZH
authors.lastname: Zhu
authors.affiliation: Institute of Bioinformatics, Zhejiang University, Hangzhou, China.
authors.forename: Xiao-Ran
authors.initials: XR
authors.lastname: Tong
authors.affiliation: Institute of Bioinformatics, Zhejiang University, Hangzhou, China.
authors.forename: Zhi-Xiang
authors.initials: ZX
authors.lastname: Zhu
authors.affiliation: Institute of Bioinformatics, Zhejiang University, Hangzhou, China.
authors.forename: Ting
authors.initials: T
authors.lastname: Qi
authors.affiliation: Institute of Bioinformatics, Zhejiang University, Hangzhou, China.
authors.forename: Jun
authors.initials: J
authors.lastname: Zhu
mesh_terms: D000818:Animals; D002874:Chromosome Mapping; D004843:Epistasis, Genetic / Q000502:physiology; D059647:Gene-Environment Interaction; D023281:Genomics; D055432:Metabolomics; D051379:Mice; D008957:Models, Genetic; D019655:Quantitative Trait, Heritable