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		568	229	method/index.html

3D-PSSM		381	176	method/3dpssm.html
BLAST		551	224	method/blast.html
FUGUE		460	193	method/fugue.html
Libellula		72	42	method/libellula.html
Prospect		104	49	method/prospect.html
PSI-BLAST		557	228	method/psiblast.html
SAMt99		182	107	method/samt99.html
ssearch		547	225	method/ssearch.html
Superfamily		210	88	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	18	1	3D-PSSM	11	6	10	12	21.7 (+/-5.8)
			BLAST	0	0	1	2	7.0 (+/-4.2)
			FUGUE	12	7	11	13	21.5 (+/-6.1)
			Libellula	10	5	8	12	20.0 (+/-5.8)
			Prospect	9	7	9	12	17.7 (+/-5.6)
			PSI-BLAST	2	1	2	3	8.5 (+/-4.1)
			SAMt99	8	5	7	10	18.6 (+/-5.8)
			ssearch	1	1	1	7	7.3 (+/-4.6)

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	44	1	3D-PSSM	30	18	16	32	31.1 (+/-4.4)
			BLAST	12	8	9	22	20.6 (+/-4.3)
			FUGUE	28	19	16	36	29.4 (+/-4.6)
			PSI-BLAST	16	7	6	17	19.2 (+/-3.5)
			SAMt99	26	16	11	31	27.8 (+/-4.6)
			ssearch	20	15	9	23	21.4 (+/-4.6)
			Superfamily	22	11	10	28	26.1 (+/-4.7)

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	127	1	3D-PSSM	87	48	57	94	26.4 (+/-2.5)
			BLAST	24	13	25	42	15.4 (+/-2.3)
			FUGUE	85	57	59	101	24.9 (+/-2.6)
			PSI-BLAST	36	14	23	42	16.2 (+/-2.1)
			SAMt99	72	41	42	78	24.7 (+/-2.6)
			ssearch	42	27	26	58	16.0 (+/-2.5)

Last update: Jun 25, 2003
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva

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