A Computational Method of Defining Potential Biomarkers based on Differential Sub-Networks

	A Computational Method of Defining Potential Biomarkers based on Differential Sub-Networks
	Huang, Xin 1; Lin, Xiaohui 1; Zeng, Jun 2; Wang, Lichao 2; Yin, Peiyuan 2; Zhou, Lina 2; Hu, Chunxiu 2; Yao, Weihong 1
刊名	SCIENTIFIC REPORTS
	2017-10-30
卷号	7
英文摘要	Analyzing omics data from a network-based perspective can facilitate biomarker discovery. To improve disease diagnosis and identify prospective information indicating the onset of complex disease, a computational method for identifying potential biomarkers based on differential sub-networks (PBDSN) is developed. In PB-DSN, Pearson correlation coefficient (PCC) is used to measure the relationship between feature ratios and to infer potential networks. A differential sub-network is extracted to identify crucial information for discriminating different groups and indicating the emergence of complex diseases. Subsequently, PB-DSN defines potential biomarkers based on the topological analysis of these differential sub-networks. In this study, PB-DSN is applied to handle a static genomics dataset of small, round blue cell tumors and a time-series metabolomics dataset of hepatocellular carcinoma. PB-DSN is compared with support vector machine-recursive feature elimination, multivariate empirical Bayes statistics, analyzing time-series data based on dynamic networks, molecular networks based on PCC, PinnacleZ, graph-based iterative group analysis, KeyPathwayMiner and BioNet. The better performance of PB-DSN not only demonstrates its effectiveness for the identification of discriminative features that facilitate disease classification, but also shows its potential for the identification of warning signals.
WOS标题词	Science & Technology
类目[WOS]	Multidisciplinary Sciences
研究领域[WOS]	Science & Technology - Other Topics
关键词[WOS]	CARDIOVASCULAR-DISEASE ; METABOLOMICS DATA ; GENE-EXPRESSION ; CANCER ; CLASSIFICATION ; IDENTIFICATION ; CARCINOMA ; SELECTION ; MODULES ; MARKERS
收录类别	SCI
语种	英语
WOS记录号	WOS:000414131700032
内容类型	期刊论文
源URL	[http://cas-ir.dicp.ac.cn/handle/321008/149782]
专题	大连化学物理研究所_中国科学院大连化学物理研究所
作者单位	1.Dalian Univ Technol, Sch Comp Sci & Technol, Dalian 116024, Peoples R China 2.Chinese Acad Sci, Dalian Inst Chem Phys, Key Lab Separat Sci Analyt Chem, Dalian 116023, Peoples R China
推荐引用方式 GB/T 7714	Huang, Xin,Lin, Xiaohui,Zeng, Jun,et al. A Computational Method of Defining Potential Biomarkers based on Differential Sub-Networks[J]. SCIENTIFIC REPORTS,2017,7.
APA	Huang, Xin.,Lin, Xiaohui.,Zeng, Jun.,Wang, Lichao.,Yin, Peiyuan.,...&Yao, Weihong.(2017).A Computational Method of Defining Potential Biomarkers based on Differential Sub-Networks.SCIENTIFIC REPORTS,7.
MLA	Huang, Xin,et al."A Computational Method of Defining Potential Biomarkers based on Differential Sub-Networks".SCIENTIFIC REPORTS 7(2017).