Supplementary Figure 3: Performance of S-CAP compared with MutPred Splice.
From: S-CAP extends pathogenicity prediction to genetic variants that affect RNA splicing
MutPred Splice is a computational method for predicting the pathogenicity of exonic synonymous variants. MutPred Splice was trained by its authors using a subset of the pathogenic data used to train/test S-CAP. As a result, we need to independently test MutPred Splice on a set of variants that was not used in its training. This test set comprises 78 rare synonymous variants from HGMD added to the database in 2013 or later and 10,000 rare synonymous variants present in healthy controls in ExAC. On this set S-CAP improves on MutPred Splice by 5.7% when comparing the overall AUC. S-CAP performs especially well in the high sensitivity ___domain and improves on the MutPred Splice hsr-AUC by 204%.
