GATE: an efficient procedure in study of pleiotropic genetic associations

doi:10.1186/s12864-017-3928-7

CSpace > 系统科学研究所

	GATE: an efficient procedure in study of pleiotropic genetic associations
	Zhang, Wei 1,2; Yang, Liu 3; Tang, Larry L.4,7; Liu, Aiyi 5; Mills, James L.5; Sun, Yuanchang 6; Li, Qizhai1
	2017-07-21
发表期刊	BMC GENOMICS
ISSN	1471-2164
卷号	18 页码:15
摘要	Background: The association studies on human complex traits are admittedly propitious to identify deleterious genetic markers. Compared to single-trait analyses, multiple-trait analyses can arguably make better use of the information on both traits and markers, and thus improve statistical power of association tests prominently. Principal component analysis (PCA) is a well-known useful tool in multivariate analysis and can be applied to this task. Generally, PCA is first performed on all traits and then a certain number of top principal components (PCs) that explain most of the trait variations are selected to construct the test statistics. However, under some situations, only utilizing these top PCs would lead to a loss of important evidences from discarded PCs and thus makes the capability compromised. Methods: To overcome this drawback while keeping the advantages of using the top PCs, we propose a group accumulated test evidence (GATE) procedure. By dividing the PCs which is sorted in the descending order according to the corresponding eigenvalues into a few groups, GATE integrates the information of traits at the group level. Results: Simulation studies demonstrate the superiority of the proposed approach over several existing methods in terms of statistical power. Sometimes, the increase of power can reach 25%. These methods are further illustrated using the Heterogeneous Stock Mice data which is collected from a quantitative genome-wide association study. Conclusions: Overall, GATE provides a powerful test for pleiotropic genetic associations.
关键词	Pleiotropic genetic associations Principal component analysis Power Biomedical study
DOI	10.1186/s12864-017-3928-7
语种	英语
资助项目	Special National Key Research and Development Plan[2016YFD0400206] ; Strategic Priority Program of the Chinese Academy of Sciences[XDB13040600] ; National Science Foundation of China[11371353]
WOS研究方向	Biotechnology & Applied Microbiology ; Genetics & Heredity
WOS类目	Biotechnology & Applied Microbiology ; Genetics & Heredity
WOS记录号	WOS:000406619400001
出版者	BIOMED CENTRAL LTD
引用统计
文献类型	期刊论文
条目标识符	http://ir.amss.ac.cn/handle/2S8OKBNM/378
专题	系统科学研究所
通讯作者	Li, Qizhai
作者单位	1.Chinese Acad Sci, Acad Math & Syst Sci, Key Lab Syst & Control, Beijing, Peoples R China 2.Yale Univ, Sch Publ Hlth, Dept Biostat, New Haven, CT USA 3.China Univ Min & Technol, Coll Geosci & Surveying Engn, Beijing, Peoples R China 4.George Mason Univ, Dept Stat, Fairfax, VA 22030 USA 5.NICHHD, Div Intramural Populat Hlth Res, Eunice Kennedy Shriver, NIH, Bethesda, MD 20892 USA 6.Florida Int Univ, Dept Math & Stat, Miami, FL 33199 USA 7.NIH, Dept Rehabil Med, Ctr Clin, Bldg 10, Bethesda, MD 20892 USA
推荐引用方式 GB/T 7714	Zhang, Wei,Yang, Liu,Tang, Larry L.,et al. GATE: an efficient procedure in study of pleiotropic genetic associations[J]. BMC GENOMICS,2017,18:15.
APA	Zhang, Wei.,Yang, Liu.,Tang, Larry L..,Liu, Aiyi.,Mills, James L..,...&Li, Qizhai.(2017).GATE: an efficient procedure in study of pleiotropic genetic associations.BMC GENOMICS,18,15.
MLA	Zhang, Wei,et al."GATE: an efficient procedure in study of pleiotropic genetic associations".BMC GENOMICS 18(2017):15.