Amyloidogenic determinants are usually not buried

BMC Structural Biology

Table 1 Accuracy indices of the consensus method and of its subordinate methods applied on the set of the 18 amyloidogenic proteins (see text)

Method	Sensitivity	Specificity	Q _α	Correlation coefficient	TP	TN	FP	FN
Av. Packing Density	0.29	0.87	0.58	0.15	191	3769	575	471
SecStr	0.10	0.95	0.52	0.07	67	4107	237	595
Pattern	0.08	0.95	0.52	0.05	53	4127	217	609
TANGO	0.13	0.97	0.55	0.17	88	4207	137	574
Conf. Energy	0.39	0.79	0.59	0.14	256	3429	915	406
Consensus (3 methods)	0.13	0.95	0.54	0.11	84	4118	226	578
Consensus (2 methods)	0.31	0.88	0.59	0.18	206	3807	537	456

True/false positives (TP, FP) and true/false negatives (TN, FN) for each method are also shown to demonstrate better the bias of each individual method (see also text). The results for a consensus based on 3 methods are also shown.

ISSN: 1472-6807