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- Title
Multifactor dimensionality reduction for graphics processing units enables genome-wide testing of epistasis in sporadic ALS.
- Authors
Greene, Casey S.; Sinnott-Armstrong, Nicholas A.; Himmelstein, Daniel S.; Park, Paul J.; Moore, Jason H.; Harris, Brent T.
- Abstract
Motivation: Epistasis, the presence of gene–gene interactions, has been hypothesized to be at the root of many common human diseases, but current genome-wide association studies largely ignore its role. Multifactor dimensionality reduction (MDR) is a powerful model-free method for detecting epistatic relationships between genes, but computational costs have made its application to genome-wide data difficult. Graphics processing units (GPUs), the hardware responsible for rendering computer games, are powerful parallel processors. Using GPUs to run MDR on a genome-wide dataset allows for statistically rigorous testing of epistasis.
- Subjects
EPISTASIS (Genetics); GENE expression; GENETIC regulation; GENOMES; COMPUTATIONAL biology; GRAPHICS processing units; STRUCTURAL bioinformatics
- Publication
Bioinformatics, 2010, Vol 26, Issue 5, p694
- ISSN
1367-4803
- Publication type
Article
- DOI
10.1093/bioinformatics/btq009