Table 4.

Performance comparison with other methods on CAFASP-4 benchmark dataset

Predictor	1-Da		2-D		Al-D
	Sen	Spec	Sen	Spec	Sen	Spec
DomSVRb	0.8	0.9	0.34	0.78	0.67	0.87
ADDA (Heger and Holm 2003)b	0.85	0.73	0.18	0.33	0.66	0.67
Armadillob	0.1	1	0.24	0.18	0.14	0.31
Biozon (Nagarajan and Yona 2004)b	0.1	1	0.35	0.19	0.17	0.29
Dompred-DPS (Bryson et al. 2005)b	0.68	0.78	0.47	0.5	0.62	0.69
DOMprob	0.85	0.76	0.35	0.5	0.71	0.71
Globplot (Linding et al. 2003)b	0.83	0.71	0.18	0.6	0.64	0.7
Mateo (Lexa and Valle 2003)b	0.51	0.78	0.12	0.15	0.4	0.58
Dompred-Domssea (Marsden et al. 2002)	0.8	0.75	0.29	0.63	0.66	0.73
Dopro (von Ohsen et al. 2004)	0.85	0.88	0.53	0.64	0.76	0.81
InterProScan (Zdobnov and Apweiler 2001)	0.93	0.75	0.24	0.67	0.72	0.74
Robetta-Ginzu (Chivian et al. 2003)	0.8	0.92	0.53	0.69	0.72	0.86
Robetta-Rosettadom	0.83	0.94	0.71	0.75	0.79	0.88
SSEP-Domain (Gewehr and Zimmer 2006)	0.93	0.84	0.47	0.73	0.79	0.82

^a1-D denotes that each tested protein chain is a 1-domain one, 2-D denotes that each tested protein chain contains more than one domain, while All-D stands for all tested protein chains

^bAb initio method