title: Contrasting the Genetic Architecture of 30 Complex Traits from Summary Association Data.
abstract: Variance-component methods that estimate the aggregate contribution of large sets of variants to the heritability of complex traits have yielded important insights into the genetic architecture of common diseases. Here, we introduce methods that estimate the total trait variance explained by the typed variants at a single locus in the genome (local SNP heritability) from genome-wide association study (GWAS) summary data while accounting for linkage disequilibrium among variants. We applied our estimator to ultra-large-scale GWAS summary data of 30 common traits and diseases to gain insights into their local genetic architecture. First, we found that common SNPs have a high contribution to the heritability of all studied traits. Second, we identified traits for which the majority of the SNP heritability can be confined to a small percentage of the genome. Third, we identified GWAS risk loci where the entire locus explains significantly more variance in the trait than the GWAS reported variants. Finally, we identified loci that explain a significant amount of heritability across multiple traits.
authors.affiliation: Bioinformatics Interdepartmental Program, University of California, Los Angeles, Los Angeles, CA 90024, USA.
authors.forename: Huwenbo
authors.initials: H
authors.lastname: Shi
authors.affiliation: Bioinformatics Interdepartmental Program, University of California, Los Angeles, Los Angeles, CA 90024, USA.
authors.forename: Gleb
authors.initials: G
authors.lastname: Kichaev
authors.affiliation: Bioinformatics Interdepartmental Program, University of California, Los Angeles, Los Angeles, CA 90024, USA; Department of Pathology and Laboratory Medicine, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90024, USA; Department of Human Genetics, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90024, USA. Electronic address: pasaniuc@ucla.edu.
authors.forename: Bogdan
authors.initials: B
authors.lastname: Pasaniuc
mesh_terms: D066264:Datasets as Topic; D020022:Genetic Predisposition to Disease / Q000235:genetics; D055106:Genome-Wide Association Study; D006801:Humans; D015810:Linkage Disequilibrium / Q000235:genetics; D008957:Models, Genetic; D020412:Multifactorial Inheritance / Q000235:genetics; D010641:Phenotype; D020641:Polymorphism, Single Nucleotide / Q000235:genetics; D040641:Quantitative Trait Loci / Q000235:genetics