KinMutRF: a random forest classifier of sequence variants in the human protein kinase superfamily

BMC Genomics

Table 2 Benchmark of KinMutRF respect to other methods

Method	Accuracy	Precision	Recall	F-score	MCC
MutationTaster	0.56	0.38	0.96	0.55	0.36
SIFT	0.68	0.45	0.81	0.58	0.39
Polyphen2:HDIV	0.66	0.44	0.90	0.59	0.42
LRT	0.65	0.45	0.87	0.59	0.39
MutationAssessor	0.76	0.55	0.66	0.60	0.43
CADD	0.76	0.54	0.77	0.64	0.48
Polyphen2:HVAR	0.64	0.53	0.85	0.65	0.50
FATHMM	0.82	0.69	0.63	0.66	0.54
VEST	0.87	0.74	0.82	0.78	0.69
KinMutRF	0.88	0.82	0.75	0.78	0.68

Prediction performance in a 10-fold cross-validation experiment on the 3689 kinase variants for which UniProt provides a characterization of pathogenicity. In bold, the best score for each performance measure

ISSN: 1471-2164