A Novel Powerful Joint Analysis with Data Fusion in Two-stage Case-Control Genome-wide Association Studies

doi:10.1080/03610918.2014.901360

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	A Novel Powerful Joint Analysis with Data Fusion in Two-stage Case-Control Genome-wide Association Studies
	Pan, Dong-Dong 1; Li, Zheng-Bang 2; Li, Qi-Zhai3 ; Fung, Wing Kam 4
	2016
发表期刊	COMMUNICATIONS IN STATISTICS-SIMULATION AND COMPUTATION
ISSN	0361-0918
卷号	45 期号:7 页码:2362-2376
摘要	In genome-wide association studies (GWASs) to detect the disease-associated genetic variants, two-stage design has received much attention because of its cost effectiveness and high efficiency. Under the framework of a two-stage design, it has been shown that joint analysis is more powerful than replication-based analysis. Several robust tests have been proposed for joint analysis to handle the problem of unknown genetic mode of inheritance. However, existing joint analysis of combining test statistics from both stages might suffer from a loss of efficiency if the combined test statistics are not sufficient or the weight of the statistic for each stage is not appropriate. In this article, we propose a new strategy for joint analysis by combining the raw data rather than the test statistics across stages and construct a robust MAX3-based test for two-staged GWASs, which can make full use of the information of the data from both stages. Our numerical results show that the proposed procedure is more powerful and computationally much faster than the existing joint analysis procedures. An application to a type 2 diabetes dataset is used to illustrate the proposed approach.
关键词	Data fusion Genetic model uncertainty GWAS MAX3 Power Two-stage design
DOI	10.1080/03610918.2014.901360
语种	英语
资助项目	National Natural Science Foundation of China[11225103] ; National Natural Science Foundation of China[11301465] ; National Natural Science Foundation of China[11371353] ; National Natural Science Foundation of China[11401240] ; National Natural Science Foundation of China[11471135] ; National Natural Science Foundation of China[61134013] ; Youth Program of Applied Basic Research Programs of Yunnan Province[2013FD001] ; Foundation of Yunnan University[2012CG018] ; Foundation of Central China Normal University[CCNU13A05032] ; Young and Middle-aged Teachers Training Program of Yunnan University[XT412003]
WOS研究方向	Mathematics
WOS类目	Statistics & Probability
WOS记录号	WOS:000379044600010
出版者	TAYLOR & FRANCIS INC
引用统计
文献类型	期刊论文
条目标识符	http://ir.amss.ac.cn/handle/2S8OKBNM/23068
专题	系统科学研究所
通讯作者	Fung, Wing Kam
作者单位	1.Yunnan Univ, Dept Stat, Kunming, Peoples R China 2.Cent China Normal Univ, Sch Math & Stat, Wuhan, Peoples R China 3.Chinese Acad Sci, Acad Math & Syst Sci, Beijing, Peoples R China 4.Univ Hong Kong, Dept Stat & Actuarial Sci, Hong Kong, Hong Kong, Peoples R China
推荐引用方式 GB/T 7714	Pan, Dong-Dong,Li, Zheng-Bang,Li, Qi-Zhai,et al. A Novel Powerful Joint Analysis with Data Fusion in Two-stage Case-Control Genome-wide Association Studies[J]. COMMUNICATIONS IN STATISTICS-SIMULATION AND COMPUTATION,2016,45(7):2362-2376.
APA	Pan, Dong-Dong,Li, Zheng-Bang,Li, Qi-Zhai,&Fung, Wing Kam.(2016).A Novel Powerful Joint Analysis with Data Fusion in Two-stage Case-Control Genome-wide Association Studies.COMMUNICATIONS IN STATISTICS-SIMULATION AND COMPUTATION,45(7),2362-2376.
MLA	Pan, Dong-Dong,et al."A Novel Powerful Joint Analysis with Data Fusion in Two-stage Case-Control Genome-wide Association Studies".COMMUNICATIONS IN STATISTICS-SIMULATION AND COMPUTATION 45.7(2016):2362-2376.