Content-based network model with duplication and divergence


Sengun Y., Erzan A.

PHYSICA A-STATISTICAL MECHANICS AND ITS APPLICATIONS, vol.365, no.2, pp.446-462, 2006 (Journal Indexed in SCI) identifier identifier

  • Publication Type: Article / Article
  • Volume: 365 Issue: 2
  • Publication Date: 2006
  • Doi Number: 10.1016/j.physa.2006.02.045
  • Title of Journal : PHYSICA A-STATISTICAL MECHANICS AND ITS APPLICATIONS
  • Page Numbers: pp.446-462

Abstract

We construct a minimal content-based realization of the duplication and divergence model of genomic networks introduced by Wagner [Proc. Nail. Acad. Sci. 91 (1994) 4387] and investigate the scaling properties of the directed degree distribution and clustering coefficient. We find that the content-based network exhibits crossover between two scaling regimes, with log-periodic oscillations for large degrees. These features are not present in the original gene duplication model, but inherent in the content-based model of Balcan and Erzan. The scaling form of the degree distribution of the content-based model turns out to be robust under duplication and divergence, with some re-adjustment of the scaling exponents, while the out-clustering coefficient goes over from a weak power-law dependence on the degree, to an exponential decay under mutations which include splitting and merging of strings. (c) 2006 Elsevier B.V. All rights reserved.