Protein complex identification based on weighted PPI network with multi-source information

CORC > 沈阳自动化研究所 > 中国科学院沈阳自动化研究所 > 数字工厂研究室

	Protein complex identification based on weighted PPI network with multi-source information
	Zheng ZY(郑泽宇); Yu Y(于阳)
刊名	JOURNAL OF THEORETICAL BIOLOGY
	2019
卷号	477 页码:77-83
关键词	Protein complex identification Weighted graph Multi-source information
ISSN号	0022-5193
产权排序	1
英文摘要	Proteins form complexes to accomplish biological functions such as transcription of DNA, translation of mRNA and cell growth. Detection of protein complexes from protein-protein interaction (PPI) networks is the first step for the analysis of biological processes and pathways. Here, we propose a new framework by incorporating Gene Ontology (GO), amino acid background frequency (AABF) and data from von Mering (von Mering data) to identify protein complexes. Firstly, based on the semantic similarity of GO, we construct a weighted PPI network. Secondly, von Mering data is added to construct six types of weighted graphs. Lastly, by integrating density, diameter and cosine similarity, we define a new condition for clustering proteins in these weighted protein network by selecting specific node as key node. Comparison and analysis results indicate that our proposed method could achieve better performances than some classic existing approaches in regard to f-measure and precision. (C) 2019 Elsevier Ltd. All rights reserved.
资助项目	Liaoning Natural Science Foundation Project of China[20180550918] ; National Natural Science Foundation of China[71671182]
WOS关键词	GENE ONTOLOGY ; MODULES ; SEQUENCE
WOS研究方向	Life Sciences & Biomedicine - Other Topics ; Mathematical & Computational Biology
语种	英语
WOS记录号	WOS:000477692500008
资助机构	Liaoning Natural Science Foundation Project of China ; National Natural Science Foundation of China
内容类型	期刊论文
源URL	[http://ir.sia.cn/handle/173321/25333]
专题	沈阳自动化研究所_数字工厂研究室
作者单位	1.University of Chinese Academy of Sciences, China 2.Software College, Shenyang Normal University, China 3.Shenyang Institute of Automation, Chinese Academy of Sciences, China
推荐引用方式 GB/T 7714	Zheng ZY,Yu Y. Protein complex identification based on weighted PPI network with multi-source information[J]. JOURNAL OF THEORETICAL BIOLOGY,2019,477:77-83.
APA	Zheng ZY,&Yu Y.(2019).Protein complex identification based on weighted PPI network with multi-source information.JOURNAL OF THEORETICAL BIOLOGY,477,77-83.
MLA	Zheng ZY,et al."Protein complex identification based on weighted PPI network with multi-source information".JOURNAL OF THEORETICAL BIOLOGY 477(2019):77-83.