Prediction of Essential Proteins by Integration of PPI Network Topology and Protein Complexes Information

  • Jun Ren
  • Jianxin Wang
  • Min Li
  • Huan Wang
  • Binbin Liu
Conference paper

DOI: 10.1007/978-3-642-21260-4_6

Volume 6674 of the book series Lecture Notes in Computer Science (LNCS)
Cite this paper as:
Ren J., Wang J., Li M., Wang H., Liu B. (2011) Prediction of Essential Proteins by Integration of PPI Network Topology and Protein Complexes Information. In: Chen J., Wang J., Zelikovsky A. (eds) Bioinformatics Research and Applications. ISBRA 2011. Lecture Notes in Computer Science, vol 6674. Springer, Berlin, Heidelberg

Abstract

Identifying essential proteins is important for understandingthe minimal requirements for cellular survival and development.Numerouscomputational methodshave been proposed to identify essential proteins from protein-protein interaction (PPI) network.However most of methods only use the PPI network topology information. HartGT indicated that essentiality is a product of theprotein complex rather than the individual protein. Based on these, we propose a new method ECC to identify essential proteins by integration of subgraph centrality (SC) of PPI network and protein complexes information.We apply ECC method and six centrality methods on the yeast PPI network. The experimental results show that the performance of ECCis much better than that of six centrality methods, whichmeans that the prediction of essential proteins based on both networktopology and protein complexes set is much better than that only based on networktopology. Moreover, ECC has a significant improvement in predictionof low-connectivity essential proteins.

Keywords

essential proteins protein complexes subgraph centrality 

Preview

Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.

Copyright information

© Springer-Verlag Berlin Heidelberg 2011

Authors and Affiliations

  • Jun Ren
    • 1
    • 2
  • Jianxin Wang
    • 1
  • Min Li
    • 1
  • Huan Wang
    • 1
  • Binbin Liu
    • 1
  1. 1.School of Information Science and EngineeringCentral South UniversityChangshaChina
  2. 2.College of Information Science and TechnologyHunan Agricultural UniversityChangshaChina