Development and implementation of an algorithm for detection of protein complexes in large interaction networks

Background: After complete sequencing of a number of genomes the focus has now turned to proteomics. Advanced proteomics technologies such as two-hybrid assay, mass spectrometry etc. are producing huge data sets of protein-protein interactions which can be portrayed as networks, and one of the burning issues is to find protein complexes in such networks. The enormous size of protein-protein interaction (PPI) networks warrants development of efficient computational methods for extraction of significant complexes. Results: This paper presents an algorithm for detection of protein complexes in large interaction networks. In a PPI network, a node represents a protein and an edge represents an interaction. The input to the algorithm is the associated matrix of an interaction network and the outputs are protein complexes. The complexes are determined by way of finding clusters, i. e. the densely connected regions in the network. We also show and analyze some protein complexes generated by t...

• Type: Journal
• Year: 2006
• Where: BMCBI
• Authors: Md. Altaf-Ul-Amin, Yoko Shinbo, Kenji Mihara, Ken Kurokawa, Shigehiko Kanaya
• Keywords: BMCBI 2006, PPI Networks, Protein Complexes, Protein-protein Interactions