Table 7.

Comparison between DBSI and several other DNA-binding site prediction methods on the TEST-206 data set

Method	Sensitivity	Specificity	Precision	Accuracy	F1	Strength	MCC
DBSI	0.74	0.85	0.49	0.84	0.59	0.80	0.51
DISPLAR	0.55	0.89	0.48	0.83	0.51	0.72	0.42
BindN	0.46	0.76	0.27	0.72	0.34	0.61	0.18
BindN-rf	0.56	0.83	0.38	0.79	0.45	0.69	0.34
DBS-PRED	0.46	0.73	0.25	0.69	0.32	0.60	0.16
DNABindR	0.60	0.72	0.29	0.70	0.39	0.66	0.25
DP-Bind	0.63	0.80	0.37	0.77	0.47	0.71	0.35
metaDBsite	0.54	0.80	0.34	0.76	0.42	0.67	0.29
DBSI 0–30%	0.68	0.84	0.43	0.82	0.53	0.76	0.44
DBSI 30–60%	0.81	0.87	0.58	0.86	0.68	0.84	0.61
DBSI 60–100%	0.76	0.86	0.51	0.85	0.61	0.81	0.54
DISPLAR 0–30%	0.50	0.89	0.45	0.83	0.47	0.70	0.38
DISPLAR 30–60%	0.65	0.88	0.55	0.84	0.59	0.76	0.50
DISPLAR 60–100%	0.56	0.89	0.49	0.84	0.52	0.73	0.43
DP-Bind 0–30%	0.62	0.79	0.33	0.76	0.43	0.70	0.32
DP-Bind 30–60%	0.69	0.79	0.41	0.77	0.51	0.74	0.40
DP-Bind 60–100%	0.62	0.82	0.39	0.79	0.48	0.72	0.37

In addition, we compare DBSI, DISPLAR and DP-Bind on three subsets of the TEST-206 data. Proteins in these subsets have homology in the ranges 0–30, 30–60 and 60–100% to examples the TRAIN-263 data set.