Literature DB >> 12513542

Infinite-order percolation and giant fluctuations in a protein interaction network.

J Kim1, P L Krapivsky, B Kahng, S Redner.   

Abstract

We investigate a model protein interaction network whose links represent interactions between individual proteins. This network evolves by the functional duplication of proteins, supplemented by random link addition to account for mutations. When link addition is dominant, an infinite-order percolation transition arises as a function of the addition rate. In the opposite limit of high duplication rate, the network exhibits giant structural fluctuations in different realizations. For biologically relevant growth rates, the node degree distribution has an algebraic tail with a peculiar rate dependence for the associated exponent.

Year:  2002        PMID: 12513542     DOI: 10.1103/PhysRevE.66.055101

Source DB:  PubMed          Journal:  Phys Rev E Stat Nonlin Soft Matter Phys        ISSN: 1539-3755


  19 in total

1.  The emergence of scaling in sequence-based physical models of protein evolution.

Authors:  Eric J Deeds; Eugene I Shakhnovich
Journal:  Biophys J       Date:  2005-04-01       Impact factor: 4.033

2.  A simple physical model for scaling in protein-protein interaction networks.

Authors:  Eric J Deeds; Orr Ashenberg; Eugene I Shakhnovich
Journal:  Proc Natl Acad Sci U S A       Date:  2005-12-29       Impact factor: 11.205

3.  Duplication-divergence model of protein interaction network.

Authors:  I Ispolatov; P L Krapivsky; A Yuryev
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2005-06-22

4.  Divergent evolution of a structural proteome: phenomenological models.

Authors:  C Brian Roland; Eugene I Shakhnovich
Journal:  Biophys J       Date:  2006-10-27       Impact factor: 4.033

5.  Spontaneous emergence of modularity in cellular networks.

Authors:  Ricard V Solé; Sergi Valverde
Journal:  J R Soc Interface       Date:  2008-01-06       Impact factor: 4.118

6.  Cliques and duplication-divergence network growth.

Authors:  I Ispolatov; Pl Krapivsky; I Mazo; A Yuryev
Journal:  New J Phys       Date:  2005-06-17       Impact factor: 3.729

7.  Evidence for the additions of clustered interacting nodes during the evolution of protein interaction networks from network motifs.

Authors:  Zhongyang Liu; Qijun Liu; Hanchang Sun; Lin Hou; Hao Guo; Yunping Zhu; Dong Li; Fuchu He
Journal:  BMC Evol Biol       Date:  2011-05-20       Impact factor: 3.260

8.  Difference in gene duplicability may explain the difference in overall structure of protein-protein interaction networks among eukaryotes.

Authors:  Takeshi Hase; Yoshihito Niimura; Hiroshi Tanaka
Journal:  BMC Evol Biol       Date:  2010-11-18       Impact factor: 3.260

9.  Scale-free behaviour of amino acid pair interactions in folded proteins.

Authors:  Steffen B Petersen; Maria Teresa Neves-Petersen; Svend B Henriksen; Rasmus J Mortensen; Henrik M Geertz-Hansen
Journal:  PLoS One       Date:  2012-07-26       Impact factor: 3.240

10.  The evolutionary dynamics of protein-protein interaction networks inferred from the reconstruction of ancient networks.

Authors:  Yuliang Jin; Dmitrij Turaev; Thomas Weinmaier; Thomas Rattei; Hernán A Makse
Journal:  PLoS One       Date:  2013-03-20       Impact factor: 3.240

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