title: A Ground Truth Based Comparative Study on Detecting Epistatic SNPs.
abstract: Genome-wide association studies (GWAS) have been widely applied to identify informative SNPs associated with common and complex diseases. Besides single-SNP analysis, the interaction between SNPs is believed to play an important role in disease risk due to the complex networking of genetic regulations. While many approaches have been proposed for detecting SNP interactions, the relative performance and merits of these methods in practice are largely unclear. In this paper, a ground-truth based comparative study is reported involving 9 popular SNP detection methods using realistic simulation datasets. The results provide general characteristics and guidelines on these methods that may be informative to the biological investigators.
authors.affiliation: Dearptment of Electrical & Computer Engineering, Virginia Polytechnic Institute and State University.
authors.forename: Li
authors.initials: L
authors.lastname: Chen
authors.forename: Guoqiang
authors.initials: G
authors.lastname: Yu
authors.forename: David J
authors.initials: DJ
authors.lastname: Miller
authors.forename: Lei
authors.initials: L
authors.lastname: Song
authors.forename: Carl
authors.initials: C
authors.lastname: Langefeld
authors.forename: David
authors.initials: D
authors.lastname: Herrington
authors.forename: Yongmei
authors.initials: Y
authors.lastname: Liu
authors.forename: Yue
authors.initials: Y
authors.lastname: Wang