High-accuracy imputation for HLA class I and II genes based on high-resolution SNP data of population-specific references.

ABSTRACT: Statistical imputation of classical human leukocyte antigen (HLA) alleles is becoming an indispensable tool for fine-mappings of disease association signals from case-control genome-wide association studies. However, most currently available HLA imputation tools are based on European reference populations and are not suitable for direct application to non-European populations. Among the HLA imputation tools, The HIBAG R package is a flexible HLA imputation tool that is equipped with a wide range of population-based classifiers; moreover, HIBAG R enables individual researchers to build custom classifiers. Here, two data sets, each comprising data from healthy Japanese individuals of difference sample sizes, were used to build custom classifiers. HLA imputation accuracy in five HLA classes (

SUBMITTER: Khor SS 

PROVIDER: S-EPMC4762906 | biostudies-literature | 2015 Dec

REPOSITORIES: biostudies-literature