Inferring domain-domain interactions from protein-protein interactions with formal concept analysis.

ABSTRACT: Identifying reliable domain-domain interactions will increase our ability to predict novel protein-protein interactions, to unravel interactions in protein complexes, and thus gain more information about the function and behavior of genes. One of the challenges of identifying reliable domain-domain interactions is domain promiscuity. Promiscuous domains are domains that can occur in many domain architectures and are therefore found in many proteins. This becomes a problem for a method where the score of a domain-pair is the ratio between observed and expected frequencies because the protein-protein interaction network is sparse. As such, many protein-pairs will be non-interacting and domain-pairs with promiscuous domains will be penalized. This domain promiscuity challenge to the problem o

SUBMITTER: Khor S 

PROVIDER: S-EPMC3929762 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature