Characterization of Nested Complexes in Protein Interaction Networks

Nazar Zaki, Antonio Mora

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

This paper provides a novel characterization of nested complexes in protein interaction networks, stressing definition and representation issues, quantification, biological validation, network metrics, motifs, modularity and gene ontology (GO) terms. This characterization can be used in the design of a nested protein complex prediction algorithm. We introduce the 'nested group' concept as a way to represent nested complexes. We also show that enrichment in essential proteins, GO terms related to regulation, imperfect 5-clique motifs, as well as higher GO homogeneity, can be used to identify proteins in nested complexes. Supplementary materials, data and programs are available at http://faculty.uaeu.ac.ae/nzaki/Research.htm.

Original languageEnglish
Title of host publicationProceedings - 2014 International Conference on Mathematics and Computers in Sciences and in Industry, MCSI 2014
PublisherInstitute of Electrical and Electronics Engineers Inc.
Pages48-54
Number of pages7
ISBN (Electronic)9781479943241
DOIs
Publication statusPublished - Feb 19 2014
Event2014 International Conference on Mathematics and Computers in Sciences and in Industry, MCSI 2014 - Varna, Bulgaria
Duration: Sep 13 2014Sep 15 2014

Publication series

NameProceedings - 2014 International Conference on Mathematics and Computers in Sciences and in Industry, MCSI 2014

Other

Other2014 International Conference on Mathematics and Computers in Sciences and in Industry, MCSI 2014
Country/TerritoryBulgaria
CityVarna
Period9/13/149/15/14

Keywords

  • Protein-protein interaction networks
  • essential proteins
  • gene ontology
  • nested complexes

ASJC Scopus subject areas

  • Computational Theory and Mathematics
  • Computer Science Applications
  • Computational Mathematics

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