Phydbac "Gene Function Predictor" : a gene annotation tool based on genomic context analysis

Background: The large amount of completely sequenced genomes allows genomic context analysis to predict reliable functional associations between prokaryotic proteins. Major methods rely on the fact that genes encoding physically interacting partners or members of shared metabolic pathways tend to be proximate on the genome, to evolve in a correlated manner and to be fused as a single sequence in another organism. Results: The new "Gene Function Predictor", linked to the web server Phydbac proposes putative associations between Escherichia coli K-12 proteins derived from a combination of these methods. We show that associations made by this tool are more accurate than linkages found in the other established databases. Predicted assignments to GO categories, based on pre-existing functional annotations of associated proteins are also available. This new database currently holds 9,379 pairwise links at an expected success rate of at least 80%, the 6,466 functional predictions t...

• Type: Journal
• Year: 2005
• Where: BMCBI
• Authors: François Enault, Karsten Suhre, Jean-Michel Claverie
• Keywords: BMCBI 2005, Gene Function Predictor, Genomic Context, Reliable Functional Associations