Table 2.

Comparison of prediction methods based on the validation set that excludes proteins present in the training set (173 disease-causing mutations (OMIM phenotype) and 179 neutral polymorphisms)

	TP	FP	FN	TN	Sensitivity	Specificity	Precision	Recall	Accuracy	F-measure
SIFT	106	23	67	156	0.6127	0.8715	0.8217	0.6127	0.7443	0.702
PolyPhen-2	139	70	34	109	0.8035	0.6089	0.6651	0.8035	0.7045	0.7278
KD4v	108	21	65	158	0.6243	0.8827	0.8372	0.6243	0.7557	0.7152