Detecting genome-wide epistases based on the clustering of relatively frequent items
Detecting genome-wide epistases based on the clustering of relatively frequent items
复制标题
基于相对频繁项目的聚类检测全基因组上位
DOI：
10.1093/bioinformatics/btr603
复制
发表时间：
2012
期刊：
影响因子：
5.8
通讯作者：
Tao Jiang
中科院分区：
文献类型：
--
作者：
Minzhu Xie;Jing Li;Tao Jiang
动机
MOTIVATION
In genome-wide association studies (GWAS), up to millions of single nucleotide polymorphisms (SNPs) are genotyped for thousands of individuals. However, conventional single locus-based approaches are usually unable to detect gene-gene interactions underlying complex diseases. Due to the huge search space for complicated high order interactions, many existing multi-locus approaches are slow and may suffer from low detection power for GWAS.
RESULTS
In this article, we develop a simple, fast and effective algorithm to detect genome-wide multi-locus epistatic interactions based on the clustering of relatively frequent items. Extensive experiments on simulated data show that our algorithm is fast and more powerful in general than some recently proposed methods. On a real genome-wide case-control dataset for age-related macular degeneration (AMD), the algorithm has identified genotype combinations that are significantly enriched in the cases.
AVAILABILITY
http://www.cs.ucr.edu/~minzhux/EDCF.zip
CONTACT
minzhux@cs.ucr.edu; jingli@cwru.edu
SUPPLEMENTARY INFORMATION
Supplementary data are available at Bioinformatics online.
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影响因子：
2.1
作者：
Park, Mee Young;Hastie, Trevor
通讯作者：
Hastie, Trevor
DOI：
10.1038/nrg2579
发表时间：
2009-06
期刊：
Nature reviews. Genetics
影响因子：
--
作者：
Cordell HJ
通讯作者：
Cordell HJ
影响因子：
9.8
作者：
Culverhouse, R;Suarez, BK;Reich, T
通讯作者：
Reich, T
影响因子：
56.9
作者：
R. Klein;C. Zeiss;E. Chew;J. Tsai;R. Sackler;Chad Haynes;A. Henning;J. Sangiovanni;S. Mane
通讯作者：
R. Klein;C. Zeiss;E. Chew;J. Tsai;R. Sackler;Chad Haynes;A. Henning;J. Sangiovanni;S. Mane
DOI：
10.1056/nejmra0808700
发表时间：
2009-04-23
期刊：
The New England journal of medicine
影响因子：
--
作者：
Hardy J;Singleton A
通讯作者：
Singleton A