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i-GSEA4GWAS: a web server for identification of pathways/gene sets associated with traits by applying an improved gene set enrichment analysis to genome-wide association study
Zhang, Kunlin; Cui, Sijia; Chang, Suhua; Zhang, Liuyan; Wang, Jing; Wang J(王晶)
2010-07-01
Source PublicationNUCLEIC ACIDS RESEARCH
ISSN0305-1048
SubtypeArticle
Volume38Issue:suppl 2Pages:W90-W95
AbstractGenome-wide association study (GWAS) is nowadays widely used to identify genes involved in human complex disease. The standard GWAS analysis examines SNPs/genes independently and identifies only a number of the most significant SNPs. It ignores the combined effect of weaker SNPs/genes, which leads to difficulties to explore biological function and mechanism from a systems point of view. Although gene set enrichment analysis (GSEA) has been introduced to GWAS to overcome these limitations by identifying the correlation between pathways/gene sets and traits, the heavy dependence on genotype data, which is not easily available for most published GWAS investigations, has led to limited application of it. In order to perform GSEA on a simple list of GWAS SNP P-values, we implemented GSEA by using SNP label permutation. We further improved GSEA (i-GSEA) by focusing on pathways/gene sets with high proportion of significant genes. To provide researchers an open platform to analyze GWAS data, we developed the i-GSEA4GWAS (improved GSEA for GWAS) web server. i-GSEA4GWAS implements the i-GSEA approach and aims to provide new insights in complex disease studies. i-GSEA4GWAS is freely available at http://gsea4gwas.psych.ac.cn/.
Subject Area生理心理学/生物心理学
Indexed BySCI
Language英语
Funding Project一室王晶课题组
WOS IDWOS:000284148900016
Citation statistics
Document Type期刊论文
Identifierhttp://ir.psych.ac.cn/handle/311026/7245
Collection中国科学院心理研究所回溯数据库(1956-2010)
Corresponding AuthorWang J(王晶)
AffiliationChinese Acad Sci, Key Lab Mental Hlth, Inst Psychol, Beijing 100101, Peoples R China
First Author AffilicationKey Laboratory of Mental Health, CAS
Recommended Citation
GB/T 7714
Zhang, Kunlin,Cui, Sijia,Chang, Suhua,et al. i-GSEA4GWAS: a web server for identification of pathways/gene sets associated with traits by applying an improved gene set enrichment analysis to genome-wide association study[J]. NUCLEIC ACIDS RESEARCH,2010,38(suppl 2):W90-W95.
APA Zhang, Kunlin,Cui, Sijia,Chang, Suhua,Zhang, Liuyan,Wang, Jing,&王晶.(2010).i-GSEA4GWAS: a web server for identification of pathways/gene sets associated with traits by applying an improved gene set enrichment analysis to genome-wide association study.NUCLEIC ACIDS RESEARCH,38(suppl 2),W90-W95.
MLA Zhang, Kunlin,et al."i-GSEA4GWAS: a web server for identification of pathways/gene sets associated with traits by applying an improved gene set enrichment analysis to genome-wide association study".NUCLEIC ACIDS RESEARCH 38.suppl 2(2010):W90-W95.
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