HAPRAP: a haplotype-based iterative method for statistical fine mapping using GWAS summary statistics.

ABSTRACT:

Motivation

Fine mapping is a widely used approach for identifying the causal variant(s) at disease-associated loci. Standard methods (e.g. multiple regression) require individual level genotypes. Recent fine mapping methods using summary-level data require the pairwise correlation coefficients ([Formula: see text]) of the variants. However, haplotypes rather than pairwise [Formula: see text], are the true biological representation of linkage disequilibrium (LD) among multiple loci. In this article, we present an empirical iterative method, HAPlotype Regional Association analysis Program (HAPRAP), that enables fine mapping using summary statistics and haplotype information from an individual-level reference panel.

Results

Simulations with individual-level genotypes show that

SUBMITTER: Zheng J 

PROVIDER: S-EPMC5544112 | biostudies-literature | 2017 Jan

REPOSITORIES: biostudies-literature