engleski

GORBI: Web application for the prediction of a protein's functional context

GORBI is an online database offering the results of computational gene function prediction in prokaryotic genomes. The analysis was done via the method of correlating gene occurrence patterns in selected organisms, termed phylogenetic profiling [1]. A machine learning algorithm based on decision trees for hierarchical multi-label classification [2] was used, and the annotations are represented in using the Gene Ontology vocabulary. The web interface will be used to present the results of our previous analyses in a clear and easily browsable accessible manner, thereby covering two angles in wet lab research: focusing on 1) function (needing prediction for genes having that function in any organism), and 2) organism (needing prediction of any function in this particular organism). The layout of the interface is shown in the figure. An early version of GORBI is freely available from http://gorbi.irb.hr/ 1. Kensche, P.R., et al., Practical and theoretical advances in predicting the function of a protein by its phylogenetic distribution. Journal of the Royal Society Interface, 2008. 5(19): p. 151-170. 2. Vens, C., et al., Decision trees for hierarchical multi-label classification. Machine Learning, 2008. 73(2): p. 185-214.

genome annotation; hierarchical multi-label classification; phylogenetic profiling

Received the Best Poster Award of the 3rd CompSoLS Meeting.