TMB-Hunt: An amino acid composition based method to screen proteomes for beta-barrel transmembrane proteins

BMC Bioinformatics

Table 2 Program performance using different settings.

*BBTM vs NTM*	% Sensitivity	% Specificity	% PPV	% NPV	% Accuracy
Plain	83	87	86.5	83.7	85
Weighted AAs	84	91	90.3	85	87.5
Evolutionary information	89	94	93.7	89.5	91.5
Evolutionary information + weighted AAs	91	94	93.8	91.3	92.5

Ability of the program to discriminate between bbtm and ntm proteins, using the 'leave homologues out' cross-validation method and with a range of different features. The plain mode indicates neither evolutionary information or weighted amino acids were included.

ISSN: 1471-2105