English, Article edition: HIERARCHICAL AND TOPOLOGICAL STUDY OF THE PROTEINâPROTEIN INTERACTION NETWORKS PO-HAN LEE; CHIEN-HUNG HUANG; JYWE-FEI FANG; ...

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Physical Description
  • article
Language
  • English

Edition details

Title
  • HIERARCHICAL AND TOPOLOGICAL STUDY OF THE PROTEINâPROTEIN INTERACTION NETWORKS
Author
  • PO-HAN LEE
  • CHIEN-HUNG HUANG
  • JYWE-FEI FANG
  • HSIANG-CHUAN LIU
  • KA-LOK NG
Physical Description
  • article
Notes
  • We employ the random graph theory approach to analyze the proteinâprotein interaction database DIP. Several global topological parameters are used to characterize the proteinâprotein interaction networks (PINs) for seven organisms. We find that the seven PINs are well approximated by the scale-free networks, that is, the node degree cumulative distribution Pcum(k) scales with the node degree k (Pcum(k) ~ k-α). We also find that the logarithm of the average clustering coefficient Cave(k) scales with k (Cave(k) ~ k-β), for E. coli and S. cerevisiae. In particular, we determine that the E. coli and the S. cerevisiae PINs are better represented by the stochastic and deterministic hierarchical network models, respectively. The current fruit fly proteinâprotein interaction dataset does not have convincing evidence in favor of the hierarchical network model. These findings lead us to conclude that, in contrast to scale-free structure, hierarchical structure model applies for certain species' PINs only.We also demonstrate that PINs are robust when subject to random perturbation where up to 50% of the nodes are rewired. Average node degree correlation study supports the fact that nodes of low connectivity are correlated, whereas nodes of high connectivity are not directly linked.
  • ProteinâProtein interaction networks, biological networks, scale-free networks, hierarchical networks
  • RePEc:wsi:acsxxx:v:08:y:2005:i:04:p:383-397
Language
  • English
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