Towards sequence-based prediction of mutation-induced stability changes in unseen non-homologous proteins

BMC Genomics

Table 3 Classification performance of the four methods optimised for the unseen-protein evaluation

Method	Evaluation	MCC	Q₂	Se	Sp	PPV	NPV	AUC
SEQ-NEIGHB		0.18	65.84	46.67	72.55	37.34	79.52	0.64
SEQ-FREQ	unseen-protein	0.25	63.33	65.71	62.50	38.05	83.87	0.69
EASE	cross-validation	0.24	70.99	42.40	81.01	43.91	80.05	0.68
EASE-AA		0.37	72.72	65.35	75.31	48.12	86.11	0.76
SEQ-NEIGHB		0.16	64.77	45.64	71.55	36.24	78.79	0.65
SEQ-FREQ	unseen-protein	0.24	61.95	66.97	60.18	37.33	83.72	0.70
EASE	independent test	0.22	69.28	43.58	78.38	41.66	79.68	0.69
EASE-AA		0.36	71.53	65.76	73.57	46.85	85.85	0.78

ISSN: 1471-2164