ICSNPathway: identify candidate causal SNPs and pathways from genome-wide association study by one analytical framework

	ICSNPathway: identify candidate causal SNPs and pathways from genome-wide association study by one analytical framework
	Zhang, Kunlin1 ; Chang, Suhua1,2 ; Cui, Sijia1,2 ; Guo, Liyuan1 ; Zhang, Liuyan1,2 ; Wang, Jing1 ; Wang, J (reprint author), Chinese Acad Sci, Inst Psychol, Key Lab Mental Hlth, Beijing 100101, Peoples R China.
心理所单位排序	1
摘要	Genome-wide association study (GWAS) is widely utilized to identify genes involved in human complex disease or some other trait. One key challenge for GWAS data interpretation is to identify causal SNPs and provide profound evidence on how they affect the trait. Currently, researches are focusing on identification of candidate causal variants from the most significant SNPs of GWAS, while there is lack of support on biological mechanisms as represented by pathways. Although pathway-based analysis (PBA) has been designed to identify disease-related pathways by analyzing the full list of SNPs from GWAS, it does not emphasize on interpreting causal SNPs. To our knowledge, so far there is no web server available to solve the challenge for GWAS data interpretation within one analytical framework. ICSNPathway is developed to identify candidate causal SNPs and their corresponding candidate causal pathways from GWAS by integrating linkage disequilibrium (LD) analysis, functional SNP annotation and PBA. ICSNPathway provides a feasible solution to bridge the gap between GWAS and disease mechanism study by generating hypothesis of SNP gene pathway(s). The ICSNPathway server is freely available at http://icsnpathway.psych.ac.cn/.
学科领域	Physiological Psychology/biological Psychology
	2011-07-01
语种	英语
发表期刊	NUCLEIC ACIDS RESEARCH
ISSN	0305-1048
卷号	39 页码:W437-W443
期刊论文类型	Article
URL	查看原文
收录类别	SCI
项目简介	Knowledge Innovation Program of the Chinese Academy of Sciences (KSCX2-EW-J-8); Project for Young Scientists Fund, Institute of Psychology, Chinese Academy of Sciences (O9CX115011). Funding for open access charge: KSCX2-EW-J-8.
WOS记录号	WOS:000292325300071
资助机构	Chinese Academy of Sciences [KSCX2-EW-J-8] ; Institute of Psychology, Chinese Academy of Sciences [O9CX115011]
引用统计	被引频次：59[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.psych.ac.cn/handle/311026/12847
专题	中国科学院心理健康重点实验室
通讯作者	Wang, J (reprint author), Chinese Acad Sci, Inst Psychol, Key Lab Mental Hlth, Beijing 100101, Peoples R China.
作者单位	1.Chinese Acad Sci, Inst Psychol, Key Lab Mental Hlth, Beijing 100101, Peoples R China 2.Chinese Acad Sci, Grad Univ, Beijing 100049, Peoples R China
第一作者单位	中国科学院心理健康重点实验室
推荐引用方式 GB/T 7714	Zhang, Kunlin,Chang, Suhua,Cui, Sijia,et al. ICSNPathway: identify candidate causal SNPs and pathways from genome-wide association study by one analytical framework[J]. NUCLEIC ACIDS RESEARCH,2011,39:W437-W443.
APA	Zhang, Kunlin.,Chang, Suhua.,Cui, Sijia.,Guo, Liyuan.,Zhang, Liuyan.,...&Wang, J .(2011).ICSNPathway: identify candidate causal SNPs and pathways from genome-wide association study by one analytical framework.NUCLEIC ACIDS RESEARCH,39,W437-W443.
MLA	Zhang, Kunlin,et al."ICSNPathway: identify candidate causal SNPs and pathways from genome-wide association study by one analytical framework".NUCLEIC ACIDS RESEARCH 39(2011):W437-W443.

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