TY - GEN
T1 - A ground truth based comparative study on detecting epistatic SNPs
AU - Chen, Li
AU - Yu, Guoqiang
AU - Miller, David J.
AU - Song, Lei
AU - Langefeld, Carl
AU - Herrington, David
AU - Liu, Yongmei
AU - Wang, Yue
PY - 2009
Y1 - 2009
N2 - 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.
AB - 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.
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U2 - 10.1109/BIBMW.2009.5332132
DO - 10.1109/BIBMW.2009.5332132
M3 - Conference contribution
C2 - 21151836
AN - SCOPUS:72849125604
SN - 9781424451210
T3 - Proceedings - 2009 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2009
SP - 26
EP - 31
BT - Proceedings - 2009 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2009
T2 - 2009 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2009
Y2 - 1 November 2009 through 4 November 2009
ER -