You are here

Influence of homology and node age on the growth of protein-protein interaction networks.

TitleInfluence of homology and node age on the growth of protein-protein interaction networks.
Publication TypeJournal Article
Year of Publication2012
AuthorsBottinelli, A, Bassetti, B, Cosentino Lagomarsino, M, Gherardi, M
JournalPhys Rev E Stat Nonlin Soft Matter Phys
Volume86
Issue4 Pt 1
Pagination041919
Date Published2012 Oct
ISSN1550-2376
KeywordsAlgorithms, Animals, Computer Simulation, Evolution, Molecular, Genome, Humans, Linear Models, Models, Statistical, Probability, Protein Interaction Mapping, Protein Interaction Maps, Proteins
Abstract

Proteins participating in a protein-protein interaction network can be grouped into homology classes following their common ancestry. Proteins added to the network correspond to genes added to the classes, so the dynamics of the two objects are intrinsically linked. Here we first introduce a statistical model describing the joint growth of the network and the partitioning of nodes into classes, which is studied through a combined mean-field and simulation approach. We then employ this unified framework to address the specific issue of the age dependence of protein interactions through the definition of three different node wiring or divergence schemes. A comparison with empirical data indicates that an age-dependent divergence move is necessary in order to reproduce the basic topological observables together with the age correlation between interacting nodes visible in empirical data. We also discuss the possibility of nontrivial joint partition and topology observables.

DOI10.1103/PhysRevE.86.041919
Alternate JournalPhys Rev E Stat Nonlin Soft Matter Phys
PubMed ID23214627