Not all scale-free networks are born equal: The role of the seed graph in PPI network evolution

Fereydoun Hormozdiari, Petra Berenbrink, Nataša Pržulj, S. Cenk Sahinalp

Research output: Contribution to journalArticle

57 Citations (Scopus)

Abstract

The (asymptotic) degree distributions of the best-known "scale-free" network models are all similar and are independent of the seed graph used; hence, it has been tempting to assume that networks generated by these models are generally similar. In this paper, we observe that several key topological features of such networks depend heavily on the specific model and the seed graph used. Furthermore, we show that starting with the "right" seed graph (typically a dense subgraph of the protein-protein interaction network analyzed), the duplication model captures many topological features of publicly available protein-protein interaction networks very well.

Original languageEnglish (US)
Pages (from-to)1373-1384
Number of pages12
JournalPLoS Computational Biology
Volume3
Issue number7
DOIs
StatePublished - Jul 1 2007
Externally publishedYes

Fingerprint

Network Evolution
Scale-free Networks
Complex networks
Protein Interaction Maps
Seed
Seeds
Protein Interaction Networks
Protein-protein Interaction
Proteins
seed
protein
protein-protein interactions
Graph in graph theory
seeds
Degree Distribution
Duplication
Network Model
Asymptotic distribution
Subgraph
Model

ASJC Scopus subject areas

  • Ecology, Evolution, Behavior and Systematics
  • Modeling and Simulation
  • Ecology
  • Molecular Biology
  • Genetics
  • Cellular and Molecular Neuroscience
  • Computational Theory and Mathematics

Cite this

Not all scale-free networks are born equal : The role of the seed graph in PPI network evolution. / Hormozdiari, Fereydoun; Berenbrink, Petra; Pržulj, Nataša; Sahinalp, S. Cenk.

In: PLoS Computational Biology, Vol. 3, No. 7, 01.07.2007, p. 1373-1384.

Research output: Contribution to journalArticle

Hormozdiari, Fereydoun ; Berenbrink, Petra ; Pržulj, Nataša ; Sahinalp, S. Cenk. / Not all scale-free networks are born equal : The role of the seed graph in PPI network evolution. In: PLoS Computational Biology. 2007 ; Vol. 3, No. 7. pp. 1373-1384.
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