The complete compositional epistasis detection in genome-wide association studies.

ABSTRACT:

Background

The detection of epistasis among genetic markers is of great interest in genome-wide association studies (GWAS). In recent years, much research has been devoted to find disease-associated epistasis in GWAS. However, due to the high computational cost involved, most methods focus on specific epistasis models, making the potential loss of power when the underlying epistasis models are not examined in these analyses.

Results

In this work, we propose a computational efficient approach based on complete enumeration of two-locus epistasis models. This approach uses a two-stage (screening and testing) search strategy and guarantees the enumeration of all epistasis patterns. The implementation is done on graphic processing units (GPU), which can finish the analysis on a G

SUBMITTER: Wan X 

PROVIDER: S-EPMC3638013 | biostudies-literature | 2013 Feb

REPOSITORIES: biostudies-literature