Performance comparison of PROSPER with PoPS and SitePrediction based on independent test datasets extracted from recent proteomics profiling studies and a recent update of the MEROPS database.

aSubstrate datasets extracted from a recent update of the MEROPS database [34], [35];
bSubstrate dataset extracted from experimental data derived from N-terminal positional proteomics [20];
c“-” denotes that the prediction result for this protease family is not available for this tool.
Note that these data are only available for a few proteases, including caspase-3, MMP-2, granzyme B (human) and granzyme B (mouse). The accuracy or sensitivity was calculated as the percentage of the known cleavage sites that were correctly predicted.