Table 1.

Performance of the published method and comparisons with previous methods with on-line servers

Mehod		MCC	Accuracy (%)	Sensitivity (%)	Specificity (%)
WED a	Single b	0.639	91.0	77.2	92.9
	Homologous c	0.648	91.4	76.3	93.5
	Homologous + feature selection d	0.859	96.8	90.7	97.6
BOMP (Berven et al., 2004)		0.817	96.2	79.8	98.5
ProfTMP (Bigelow and Rost, 2006)		0.583	92.3	37.0	1
TMB_HUNT (Garrow et al. 2005)		0.828	96.4	81.5	98.5

a. The method proposed in this study. Proteins were classified based on the least weighted Euclidean distance (WED).

b. For each protein, only the protein itself was used to calculate residue composition.

c. For each protein, 50 homologous proteins were included in the calculation of residue composition.

d. For each protein, 50 homologous proteins were included in the calculation of residue composition. Feature-selection was used to select a set of residues and di-peptides that were useful for the prediction of OMPs. Weighted Euclidean distances were then calculated based on the composition of the selected set.