Matrix factorization reveals aging-specific co-expression gene modules in the fat and muscle tissues in nonhuman primates

doi:10.1038/srep34335

NWIPB OpenIR

	Matrix factorization reveals aging-specific co-expression gene modules in the fat and muscle tissues in nonhuman primates
	Wang, Yongcui 1,2; Zhao, Weiling 1; Zhou, Xiaobo 1
	2016-10-05
发表期刊	SCIENTIFIC REPORTS
卷号	6
文章类型	Article
摘要	Accurate identification of coherent transcriptional modules (subnetworks) in adipose and muscle tissues is important for revealing the related mechanisms and co-regulated pathways involved in the development of aging-related diseases. Here, we proposed a systematically computational approach, called ICEGM, to Identify the Co-Expression Gene Modules through a novel mathematical framework of Higher-Order Generalized Singular Value Decomposition (HO-GSVD). ICEGM was applied on the adipose, and heart and skeletal muscle tissues in old and young female African green vervet monkeys. The genes associated with the development of inflammation, cardiovascular and skeletal disorder diseases, and cancer were revealed by the ICEGM. Meanwhile, genes in the ICEGM modules were also enriched in the adipocytes, smooth muscle cells, cardiac myocytes, and immune cells. Comprehensive disease annotation and canonical pathway analysis indicated that immune cells, adipocytes, cardiomyocytes, and smooth muscle cells played a synergistic role in cardiac and physical functions in the aged monkeys by regulation of the biological processes associated with metabolism, inflammation, and atherosclerosis. In conclusion, the ICEGM provides an efficiently systematic framework for decoding the co-expression gene modules in multiple tissues. Analysis of genes in the ICEGM module yielded important insights on the cooperative role of multiple tissues in the development of diseases.
WOS标题词	Science & Technology
DOI	10.1038/srep34335
关键词[WOS]	SINGULAR-VALUE DECOMPOSITION ; CARDIOVASCULAR-DISEASE ; DIFFERENTIAL EXPRESSION ; NETWORK ANALYSIS ; SKELETAL-MUSCLE ; ADIPOSE-TISSUE ; INFLAMMATION ; VERSICAN ; ATHEROSCLEROSIS ; ISOFORMS
收录类别	SCI
语种	英语
项目资助者	NIH(1U01CA166886 ; National Natural Science Foundation of China(11671396) ; Qinghai Sciences and Technology Department for Basic Research Program(2016-ZJ-744) ; 1R01LM010185 ; 1U01HL111560)
WOS研究方向	Science & Technology - Other Topics
WOS类目	Multidisciplinary Sciences
WOS记录号	WOS:000384658500001
引用统计	被引频次：3[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://210.75.249.4/handle/363003/6423
专题	中国科学院西北高原生物研究所
作者单位	1.Wake Forest Sch Med, Dept Radiol, Ctr Bioinformat & Syst Biol, Winston Salem, NC USA 2.Chinese Acad Sci, Northwest Inst Plateau Biol, Key Lab Adaptat & Evolut Plateau Biota, Xining, Peoples R China
推荐引用方式 GB/T 7714	Wang, Yongcui,Zhao, Weiling,Zhou, Xiaobo. Matrix factorization reveals aging-specific co-expression gene modules in the fat and muscle tissues in nonhuman primates[J]. SCIENTIFIC REPORTS,2016,6.
APA	Wang, Yongcui,Zhao, Weiling,&Zhou, Xiaobo.(2016).Matrix factorization reveals aging-specific co-expression gene modules in the fat and muscle tissues in nonhuman primates.SCIENTIFIC REPORTS,6.
MLA	Wang, Yongcui,et al."Matrix factorization reveals aging-specific co-expression gene modules in the fat and muscle tissues in nonhuman primates".SCIENTIFIC REPORTS 6(2016).