Conformational epitope matching and prediction based on protein surface spiral features

BMC Genomics

Table 2 Comparison of the results of all available systems and proposed search methods on the validation set. SEN Sensitivity, SPE Specificity, PPV Positive Predictive Value, ACC Accuracy, MCC Matthew’s Correlation Coefficient, Avg-AUC Average Area Under the Curve. (Accessed date: July 2017)

Prediction System	SEN	SPC	PPV	ACC	F1 score	MCC	Avg-AUC	Prediction Condition
CEKEG (2013)	0.528	0.786	0.292	0.775	0.370	0.236	0.657	Best Result from Top3 prediction
ElliPro (2008)	0.343	0.901	0.357	0.826	0.300	0.227	0.622	Best Result from Top3 prediction
CBTOPE (2010)	0.334	0.665	0.087	0.597	0.133	0.000	0.500	SVM threshold: 0.3 (default)
Epitopia (2009)	0.274	0.836	0.187	0.761	0.210	0.081	0.555	Immunogenicity Scale: 5
EPSVR (2010)	0.198	0.815	0.137	0.733	0.152	0.007	0.507	Epitope score > 80
Discotope2.0 (2012)	0.190	0.847	0.244	0.773	0.140	0.065	0.518	Threshold: −3.7 (default)
Search System	TPR	SPC	PPV	ACC	F1 score	MCC	Avg-AUC	Prediction Condition
CSS	0.120	0.978	0.132	0.890	0.123	0.028	0.549	Best Result from Top3 prediction
SVS	0.473	0.869	0.365	0.853	0.396	0.307	0.671	Best Result from Top3 prediction

ISSN: 1471-2164