Supervised inference of gene regulatory networks by linear programming

CSpace > 应用数学研究所

	Supervised inference of gene regulatory networks by linear programming
	Wang, Yong ; Joshi, Trupti ; Xu, Dong ; Zhang, Xiang-Sun; Chen, Luonan
	2006
发表期刊	COMPUTATIONAL INTELLIGENCE AND BIOINFORMATICS, PT 3, PROCEEDINGS
ISSN	0302-9743
卷号	4115 页码:551-561
摘要	The development of algorithms for reverse-engineering gene regulatory networks is boosted by microarray technologies, which enable the simultaneous measurement of all RNA transcripts in a cell. Meanwhile the curated repository of regulatory associations between transcription factors (TF) and target genes is available based on bibliographic references. In this paper we propose a novel method to combine time-course microarray dataset and documented or potential known transcription regulators for inferring gene regulatory networks. The gene network reconstruction algorithm is based on linear programming and performed in the supervised learning framework. We have tested the new method using both simulated data and experimental data. The result demonstrates the effectiveness of our method which significantly alleviates the problem of data scarcity and remarkably improves the reliability.
关键词	systems biology gene regulatory network linear programming
语种	英语
WOS研究方向	Biochemistry & Molecular Biology ; Computer Science
WOS类目	Biochemical Research Methods ; Computer Science, Artificial Intelligence ; Computer Science, Information Systems ; Computer Science, Interdisciplinary Applications ; Computer Science, Theory & Methods
WOS记录号	WOS:000240085400059
出版者	SPRINGER-VERLAG BERLIN
引用统计
文献类型	期刊论文
条目标识符	http://ir.amss.ac.cn/handle/2S8OKBNM/2630
专题	应用数学研究所
通讯作者	Wang, Yong
作者单位	1.Osaka Sangyo Univ, Osaka 5748530, Japan 2.Chinese Acad Sci, Acad Math & Syst Sci, Beijing 100080, Peoples R China 3.Univ Missouri, Dept Comp Sci, Columbia, MO 65211 USA 4.Univ Missouri, Christopher S Bond Life Sci Ctr, Columbia, MO 65211 USA 5.Shanghai Univ, Inst Syst Biol, Shanghai 200444, Peoples R China
推荐引用方式 GB/T 7714	Wang, Yong,Joshi, Trupti,Xu, Dong,et al. Supervised inference of gene regulatory networks by linear programming[J]. COMPUTATIONAL INTELLIGENCE AND BIOINFORMATICS, PT 3, PROCEEDINGS,2006,4115:551-561.
APA	Wang, Yong,Joshi, Trupti,Xu, Dong,Zhang, Xiang-Sun,&Chen, Luonan.(2006).Supervised inference of gene regulatory networks by linear programming.COMPUTATIONAL INTELLIGENCE AND BIOINFORMATICS, PT 3, PROCEEDINGS,4115,551-561.
MLA	Wang, Yong,et al."Supervised inference of gene regulatory networks by linear programming".COMPUTATIONAL INTELLIGENCE AND BIOINFORMATICS, PT 3, PROCEEDINGS 4115(2006):551-561.