Finding Occurrences of Protein Complexes in Protein-Protein Interaction Graphs

Abstract : In the context of comparative analysis of protein-protein interaction graphs, we use a graph-based formalism to detect the preservation of a given protein complex G in the protein-protein interaction graph H of another species with respect to (w.r.t.) orthologous proteins. Two problems are considered: the Exact-($\mu$G; $\mu$H)-Matching problem and the Max-($\mu$G; $\mu$H)-Matching problems, where $\mu$G (resp. $\mu$H) denotes in both problems the maximum number of orthologous proteins in H (resp. G) of a protein in G (resp. H). Following [10], the Exact-($\mu$G; $\mu$H)-Matching problem asks for an injective homomorphism of G to H w.r.t. orthologous proteins. The optimization version is called the Max-($\mu$G; $\mu$H)-Matching problem and is concerned with finding an injective mapping of a graph G to a graph H w.r.t. orthologous proteins that matches as many edges of G as possible. For both problems, we essentially focus on bounded degree graphs and extremal small values of parameters $\mu$G and $\mu$H.
Liste complète des métadonnées

Cited literature [27 references]  Display  Hide  Download
Contributor : Guillaume Fertin <>
Submitted on : Monday, September 14, 2009 - 9:53:26 AM
Last modification on : Wednesday, May 23, 2018 - 3:44:02 PM
Document(s) archivé(s) le : Tuesday, October 16, 2012 - 10:51:31 AM


Files produced by the author(s)


  • HAL Id : hal-00416394, version 1


Guillaume Fertin, Romeo Rizzi, Stéphane Vialette. Finding Occurrences of Protein Complexes in Protein-Protein Interaction Graphs. Journal of Discrete Algorithms, Elsevier, 2009, 7 (1), pp.90-101. ⟨hal-00416394⟩



Record views


Files downloads