OrthoNets: simultaneous visual analysis of orthologs and their interaction neighborhoods across different organisms.

TitleOrthoNets: simultaneous visual analysis of orthologs and their interaction neighborhoods across different organisms.
Publication TypeJournal Article
Year of Publication2011
AuthorsHao, Y., Merkoulovitch A., Vlasblom J., Pu S., Turinsky A. L., Roudeva D., Turner B., Greenblatt J., and Wodak S. J.
JournalBioinformatics
Volume27
Issue6
Pagination883-4
Date Published2011 Mar 15
ISSN1367-4811
KeywordsComputational Biology, Databases, Protein, Protein Interaction Mapping, Proteins, Software, User-Computer Interface
Abstract

MOTIVATION: Protein interaction networks contain a wealth of biological information, but their large size often hinders cross-organism comparisons. We present OrthoNets, a Cytoscape plugin that displays protein-protein interaction (PPI) networks from two organisms simultaneously, highlighting orthology relationships and aggregating several types of biomedical annotations. OrthoNets also allows PPI networks derived from experiments to be overlaid on networks extracted from public databases, supporting the identification and verification of new interactors. Any newly identified PPIs can be validated by checking whether their orthologs interact in another organism.AVAILABILITY: OrthoNets is freely available at http://wodaklab.org/orthonets/.

DOI10.1093/bioinformatics/btr035
Alternate JournalBioinformatics
PubMed ID21257609
PubMed Central IDPMC3051336
Grant ListMOP82940 / / Canadian Institutes of Health Research / Canada