Home - Secondary structure Comparative modelling Contacts Threading - search - FTP - Mirrors - Bottom

EVA summary for category threading, best of first 5 hits (1)

Contents

Local link to information about methods evaluated
All prediction results for threading

Common subset 1
Common subset 2
Common subset 3

All prediction results in ASCII (raw text)
Explanations of measures for prediction accuracy
For older versions of the results

About threading prediction methods evaluated

Method		Nprot	Nweek	Detailed results for method
ALL		633	260	method/index.html

3D-PSSM		458	210	method/3dpssm.html
BLAST		505	222	method/blast.html
FUGUE		538	228	method/fugue.html
Libellula		134	72	method/libellula.html
Prospect		143	70	method/prospect.html
PSI-BLAST		517	226	method/psiblast.html
SAMt99		210	129	method/samt99.html
ssearch		506	220	method/ssearch.html
Superfamily		285	123	method/superfamily.html

Comparison of threading prediction methods (detail level 1)

Averages compiled over different subsets

The reason for compiling different averages is that not ALL proteins were predicted by all methods!
Only proteins with no significant sequence identity to previously known PDB proteins are reported, here.
The following subsets are given:
Detail level 1 (this file) as ASCII

(...) contain standard error of a mean

subset	nprot	rank	Method	Sgnf(-lnP_MMT)	Sgnf(Z_CE)	Sgnf(Q_LG1)	Sgnf(Q_LG2)	N3.5A_Gbl%
Set 1			Sorted alphabetically for identical ranks!		MORE SCORES
common 1	15	1	3D-PSSM	10	5	10	11	30.4 (+/-6.8)
			BLAST	0	0	2	3	10.2 (+/-4.4)
			FUGUE	12	7	10	13	30.5 (+/-7.0)
			Libellula	9	5	8	11	24.2 (+/-5.8)
			Prospect	9	6	9	12	19.7 (+/-5.6)
			PSI-BLAST	4	2	4	3	14.3 (+/-4.6)
			SAMt99	7	4	6	10	27.9 (+/-7.2)
			ssearch	2	2	3	8	10.5 (+/-5.4)

subset	nprot	rank	Method	Sgnf(-lnP_MMT)	Sgnf(Z_CE)	Sgnf(Q_LG1)	Sgnf(Q_LG2)	N3.5A_Gbl%
Set 2			Sorted alphabetically for identical ranks!		MORE SCORES
common 2	60	1	3D-PSSM	41	26	23	43	34.5 (+/-4.0)
			BLAST	18	12	12	29	20.4 (+/-3.6)
			FUGUE	40	28	24	49	33.6 (+/-4.2)
			PSI-BLAST	19	10	10	25	19.5 (+/-3.3)
			SAMt99	37	24	18	43	33.7 (+/-4.3)
			ssearch	25	19	15	30	21.8 (+/-4.0)
			Superfamily	29	16	13	35	27.6 (+/-4.1)

subset	nprot	rank	Method	Sgnf(-lnP_MMT)	Sgnf(Z_CE)	Sgnf(Q_LG1)	Sgnf(Q_LG2)	N3.5A_Gbl%
Set 3			Sorted alphabetically for identical ranks!		MORE SCORES
common 3	126	1	3D-PSSM	91	53	58	97	30.1 (+/-2.6)
			BLAST	26	14	23	44	15.4 (+/-2.3)
			FUGUE	90	64	59	103	29.0 (+/-2.8)
			PSI-BLAST	45	25	26	49	19.0 (+/-2.3)
			SAMt99	77	45	44	84	28.9 (+/-2.8)
			ssearch	45	31	30	61	18.5 (+/-2.6)

Last update: Jan 12, 2004
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva

Home - Secondary structure Comparative modelling Contacts Threading - search - FTP - Mirrors - Top