Functional module identification in protein interaction networks by interaction patterns.

ABSTRACT:

Motivation

Identifying functional modules in protein-protein interaction (PPI) networks may shed light on cellular functional organization and thereafter underlying cellular mechanisms. Many existing module identification algorithms aim to detect densely connected groups of proteins as potential modules. However, based on this simple topological criterion of 'higher than expected connectivity', those algorithms may miss biologically meaningful modules of functional significance, in which proteins have similar interaction patterns to other proteins in networks but may not be densely connected to each other. A few blockmodel module identification algorithms have been proposed to address the problem but the lack of global optimum guarantee and the prohibitive computational complexity

SUBMITTER: Wang Y 

PROVIDER: S-EPMC3924044 | biostudies-literature | 2014 Jan

REPOSITORIES: biostudies-literature