Peeling the yeast protein network

Stefan Wuchty, Eivind Almaas

Research output: Contribution to journalArticle

174 Scopus citations

Abstract

A set of highly connected proteins (or hubs) plays an important role for the integrity of the protein interaction network of Saccharomyces cerevisae by connecting the network's intrinsic modules [1, 2]. The importance of the hubs' central placement is further confirmed by their propensity to be lethal. However, although highly emphasized, little is known about the topological coherence among the hubs. Applying a core decomposition method which allows us to identify the inherent layer structure of the protein interaction network, we find that the probability of nodes both being essential and evolutionary conserved successively increases toward the innermost cores. While connectivity alone is often not a sufficient criterion to assess a protein's functional, evolutionary and topological relevance, we classify nodes as globally and locally central depending on their appearance in the inner or outer cores. The observation that globally central proteins participate in a substantial number of protein complexes which display an elevated degree of evolutionary conservation allows us to hypothesize that globally central proteins serve as the evolutionary backbone of the proteome, Even though protein interaction data are extensively flawed, we find that our results are very robust against inaccurately determined protein interactions.

Original languageEnglish (US)
Pages (from-to)444-449
Number of pages6
JournalProteomics
Volume5
Issue number2
DOIs
StatePublished - Feb 1 2005
Externally publishedYes

Keywords

  • Evolutionary backbone
  • Local and global centrality
  • Protein cores

ASJC Scopus subject areas

  • Biochemistry
  • Molecular Biology

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