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HLA*IMP—an integrated framework for imputing classical HLA alleles from SNP genotypes

By Alexander T. Dilthey, Loukas Moutsianas, Stephen Leslie and Gil McVean

Abstract

Motivation: Genetic variation at classical HLA alleles influences many phenotypes, including susceptibility to autoimmune disease, resistance to pathogens and the risk of adverse drug reactions. However, classical HLA typing methods are often prohibitively expensive for large-scale studies. We previously described a method for imputing classical alleles from linked SNP genotype data. Here, we present a modification of the original algorithm implemented in a freely available software suite that combines local data preparation and QC with probabilistic imputation through a remote server

Topics: Original Papers
Publisher: Oxford University Press
OAI identifier: oai:pubmedcentral.nih.gov:3065693
Provided by: PubMed Central
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