Cross-species cluster co-conservation: a new method for generating protein interaction networks.
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.
Karimpour-Fard
Anis
A
Center for Computational Pharmacology, University of Colorado School of Medicine, Aurora, Colorado 80045, USA.
Detweiler
Corrella S
CS
Erickson
Kimberly D
KD
Hunter
Lawrence
L
Gill
Ryan T
RT
D000465:Algorithms; D018441:Biofilms; D016000:Cluster Analysis; D019295:Computational Biology / Q000379:methods*; D030562:Databases, Protein; D004926:Escherichia coli / Q000378:metabolism; D020563:Gammaproteobacteria / Q000378:metabolism*; D016013:Likelihood Functions; D008954:Models, Biological; D008957:Models, Genetic; D015233:Models, Statistical; D010802:Phylogeny; D025941:Protein Interaction Mapping; D012763:Shigella flexneri / Q000378:metabolism; D013045:Species Specificity