Characterization of protein complexes and subcomplexes in protein-protein interaction databases.

ABSTRACT: The identification and characterization of protein complexes implicated in protein-protein interaction data are crucial to the understanding of the molecular events under normal and abnormal physiological conditions. This paper provides a novel characterization of subcomplexes in protein interaction databases, stressing definition and representation issues, quantification, biological validation, network metrics, motifs, modularity, and gene ontology (GO) terms. The paper introduces the concept of "nested group" as a way to represent subcomplexes and estimates that around 15% of those nested group with the higher Jaccard index may be a result of data artifacts in protein interaction databases, while a number of them can be found in biologically important modular structures or dynamic struct

SUBMITTER: Zaki N 

PROVIDER: S-EPMC4334629 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature