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%.
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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)