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

EVA summary for category threading, best of first 1 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		664	270	method/index.html

3D-PSSM		484	219	method/3dpssm.html
BLAST		534	232	method/blast.html
FUGUE		564	237	method/fugue.html
Libellula		159	80	method/libellula.html
Prospect		150	73	method/prospect.html
PSI-BLAST		548	236	method/psiblast.html
SAMt99		220	137	method/samt99.html
ssearch		537	230	method/ssearch.html
Superfamily		297	130	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:
- set 1: 15 proteins and 8 methods (HTML - ASCII)
- set 2: 66 proteins and 7 methods (HTML - ASCII)
- set 3: 133 proteins and 6 methods (HTML - ASCII)
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	8	4	6	8	22.8 (+/-6.8)
			BLAST	0	0	1	1	8.0 (+/-3.4)
			FUGUE	7	5	9	8	25.5 (+/-7.4)
			Libellula	6	3	5	8	15.4 (+/-5.2)
			Prospect	9	6	7	7	16.1 (+/-5.5)
			PSI-BLAST	3	2	2	2	10.0 (+/-3.6)
			SAMt99	6	4	6	9	27.2 (+/-7.2)
			ssearch	2	2	2	4	9.2 (+/-5.5)

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	66	1	3D-PSSM	38	17	17	40	28.6 (+/-3.8)
			BLAST	17	9	12	23	17.7 (+/-3.3)
			FUGUE	31	21	17	38	29.1 (+/-4.0)
			PSI-BLAST	15	8	6	19	15.5 (+/-3.1)
			SAMt99	37	18	17	39	29.0 (+/-3.9)
			ssearch	20	13	14	25	18.8 (+/-3.6)
			Superfamily	31	16	14	35	25.2 (+/-3.7)

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	133	1	3D-PSSM	76	37	39	80	24.3 (+/-2.5)
			BLAST	23	11	21	34	13.9 (+/-2.2)
			FUGUE	65	48	40	74	24.9 (+/-2.7)
			PSI-BLAST	35	22	19	40	15.2 (+/-2.1)
			SAMt99	73	33	42	78	26.2 (+/-2.7)
			ssearch	37	24	26	46	16.7 (+/-2.5)

Last update: Mar 5, 2004
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva

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