UbPred

:: DESCRIPTION

UbPred is a software package and web tool that probabilistically determines whether a lysine residue in a protein is ubiquitinated.UbPred is a random forest-based predictor of potential ubiquitination sites in proteins. It was trained on a combined set of 266 non-redundant experimentally verified ubiquitination sites available from our experiments and from two large-scale proteomics studies (Hitchcock, et al., 2003; Peng, et al., 2003). Class-balanced accuracy of UbPred reached 72%, whereas the AUC (area under the ROC curve) was estimated to be ~80%.

::DEVELOPER

Predrag Radivojac (Indiana University, School of Informatics), Vladimir Vacic (Columbia University) and Lilia Iakoucheva (The Rockefeller University, Laboratory for Statistical Genetics).

:: REQUIREMENTS

• Linux / Windows

:: DOWNLOAD

 UbPred

:: MORE INFORMATION

Citation:

Radivojac, P., Vacic, V., Haynes, C., Cocklin, R. R., Mohan, A., Heyen, J. W., Goebl, M. G., and Iakoucheva, L. M.
Identification, Analysis and Prediction of Protein Ubiquitination Sites.
Proteins: Structure, Function, and Bioinformatics. 78(2):365-380. (2010)