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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*

Author Affiliations

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

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

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

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Genome Biology 2007, 8:R185  doi:10.1186/gb-2007-8-9-r185

Published: 5 September 2007

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.