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SHEsisEpi, a GPU-enhanced genome-wide SNP-SNP interaction scanning algorithm, efficiently reveals the risk of genetic epistasis in bipolar disorder

Xiaohan Hu, Qiang Liu, Zhao Zhang, Zhiqiang Li, Shilin Wang, Lin He, Yongyong Shi
Bio-X Center and Affiliated Changning Mental Health Center, Key Laboratory for the Genetics of Developmental and Neuropsychiatric Disorders (Ministry of Education), Shanghai Jiao Tong University, Shanghai 200030, China
Cell Research, 20, 854-857 (25 May 2010)

@article{hu2010shesisepi,

   title={SHEsisEpi, a GPU-enhanced genome-wide SNP-SNP interaction scanning algorithm, efficiently reveals the risk of genetic epistasis in bipolar disorder},

   author={Hu, X. and Liu, Q. and Zhang, Z. and Li, Z. and Wang, S. and He, L. and Shi, Y.},

   journal={Cell Research},

   issn={1001-0602},

   year={2010},

   publisher={Nature Publishing Group}

}

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We developed a GPU-based analytical method, named as SHEsisEpi, which purely focuses on risk epistasis in a genome-wide association study (GWAS) of complex traits, excluding the contamination of marginal effects caused by single-locus association. We analyzed the Wellcome Trust Case Control Consortium’s (WTCCC) GWAS data of bipolar disorder (BPD) with 500K SNPs.
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