Cross-species cluster co-conservation: a new method for generating protein interaction networks

doi:10.1186/gb-2007-8-9-r185

Genome Biology

Volume 8
Issue 9

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Karimpour-Fard A
Detweiler CS
Erickson KD
Hunter L
Gill RT

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Detweiler CS
Erickson KD
Hunter L
Gill RT
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Cross-species cluster co-conservation: a new method for generating protein interaction networks

Anis Karimpour-Fard¹^* , Corrella S Detweiler²^* , Kimberly D Erickson² , Lawrence Hunter¹ and Ryan T Gill³

¹Center for Computational Pharmacology, University of Colorado School of Medicine, Aurora, Colorado 80045, USA

²MCD-Biology, University of Colorado, Boulder, CO 80309, USA

³Department of Chemical and Biological Engineering, University of Colorado, Boulder, CO 80309, USA

author email corresponding author email* Contributed equally

Genome Biology 2007, 8:R185doi:10.1186/gb-2007-8-9-r185


Published:	5 September 2007

Subject areas: Genome studies, Microbiology and parasitology, Bioinformatics, Evolution

Abstract

Co-conservation (phylogenetic profiles) is a well-established method for predicting functional relationships between proteins. Several publicly available databases use this method and additional clustering strategies to develop networks of protein interactions (cluster co-conservation (CCC)). CCC has previously been limited to interactions within a single target species. We have extended CCC to develop protein interaction networks based on co-conservation between protein pairs across multiple species, cross-species cluster co-conservation.