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MOfinder: A Novel Algorithm for Detecting Overlapping Modules from Protein-Protein Interaction Network.

Since organism development and many critical cell biology processes are organized in modular patterns, many algorithms have been proposed to detect modules. In this study, a new method, MOfinder, was developed to detect overlapping modules in a protein-protein interaction (PPI) network. We demonstra...

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Published in:Journal of Biomedicine & Biotechnology Vol. 2012; pp. 1 - 11
Main Authors: Qi Yu, Gong-Hua Li, Jing-Fei Huang
Format: algorithm equations & formulas research tables/charts Journal Article
Published: Wiley-Blackwell 2012
Online Access:View this record in EBSCOhost
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      dt: 2012
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      pub: Wiley-Blackwell
      place: Malden, Massachusetts
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        atl: MOfinder: A Novel Algorithm for Detecting Overlapping Modules from Protein-Protein Interaction Network.
      aug:
        au:
          Qi Yu
          Gong-Hua Li
          Jing-Fei Huang
        affil: State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China; Graduate School of the Chinese Academy of Sciences, Kunming 650223, China
      sug:
        subj:
          Algorithms
          Proteins Metabolism
          Neoplasms Immunology
          Neoplasms Therapy
          Molecular Probe Techniques
          Human
          Resource Databases
          Software
          Funding Source
      ab: Since organism development and many critical cell biology processes are organized in modular patterns, many algorithms have been proposed to detect modules. In this study, a new method, MOfinder, was developed to detect overlapping modules in a protein-protein interaction (PPI) network. We demonstrate that our method is more accurate than other 5 methods. Then, we applied MOfinder to yeast and human PPI network and explored the overlapping information. Using the overlapping modules of human PPI network, we constructed the module-module communication network. Functional annotation showed that the immune-related and cancer-related proteins were always together and present in the same modules, which offer some clues for immune therapy for cancer. Our study around overlapping modules suggests a new perspective on the analysis of PPI network and improves our understanding of disease.
      pubtype: Academic Journal
      doctype:
        algorithm
        equations & formulas
        research
        tables/charts
        Journal Article
      ougenre: Article
    language: English
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