Protein complex identification based on weighted PPI network with multi-source information
文献类型：期刊论文
| 作者 | Zheng ZY(郑泽宇) ; Yu Y(于阳)
|
| 刊名 | JOURNAL OF THEORETICAL BIOLOGY
 |
| 出版日期 | 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. |
| WOS关键词 | GENE ONTOLOGY ; MODULES ; SEQUENCE |
| 资助项目 | Liaoning Natural Science Foundation Project of China[20180550918] ; National Natural Science Foundation of China[71671182] |
| 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 |
| 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. |
入库方式： OAI收割
来源：沈阳自动化研究所
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