Current Bioinformatics

Yi-Ping Phoebe Chen
Department of Computer Science and Information Technology
La Trobe University
Melbourne
Australia

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Protein Modules Detection Based on Subcellular Information

Author(s): Yang Yu, Lei Lin, Chengjie Sun, Xiaolong Wang, Xuan Wang.

Abstract:

Protein modules detection from protein-protein interaction network is the hot topic in the biological information process. In this paper, we present a rank strategy for deriving protein complex, in which both subcellular information and topological information of the network are combined. First, we locate the clusters based on the competing methods from protein-protein interaction network as candidate clusters and rank these clusters based on link density calculated from the localization matrix. Second, compared with four original methods, the experimental results demonstrate that our rank strategy can improve the performances of the four original methods and is robust to all the similarity scores. Finally, the integration of the protein co-cocalizaiton information can reduce false positive percentage, especially for the extracted protein complexes only from protein-protein interaction network. Furthermore, detailed comparison with functional annotations illustrates and certifies the efficiency of the spatial information and this strategy is indicated to be helpful to find functional modules.

Keywords: Biological information process, PPI networks, protein modules detection, subcellular information.

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Article Details

VOLUME: 8
ISSUE: 3
Year: 2013
Page: [293 - 298]
Pages: 6
DOI: 10.2174/1574893611308030004
Price: $58