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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		536	224	method/index.html

3D-PSSM		425	198	method/3dpssm.html
BLAST		170	88	method/blast.html
FUGUE		504	216	method/fugue.html
Libellula		106	61	method/libellula.html
Prospect		129	63	method/prospect.html
PSI-BLAST		173	89	method/psiblast.html
SAMt99		201	120	method/samt99.html
ssearch		169	85	method/ssearch.html
Superfamily		253	111	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: 8 proteins and 8 methods (HTML - ASCII)
- set 2: 33 proteins and 7 methods (HTML - ASCII)
- set 3: 51 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	8	1	3D-PSSM	5	4	3	6	19.4 (+/-7.3)
			BLAST	0	0	0	0	3.1 (+/-1.0)
			FUGUE	5	4	4	6	18.3 (+/-8.2)
			Libellula	5	3	3	5	19.6 (+/-8.0)
			Prospect	5	4	4	6	12.2 (+/-6.5)
			PSI-BLAST	2	2	1	2	7.5 (+/-5.1)
			SAMt99	5	4	3	5	24.5 (+/-7.6)
			ssearch	1	1	0	3	7.9 (+/-6.5)

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	33	1	3D-PSSM	18	8	6	21	23.9 (+/-4.9)
			BLAST	9	6	5	11	12.8 (+/-4.0)
			FUGUE	17	11	7	19	22.2 (+/-5.0)
			PSI-BLAST	10	6	2	12	13.0 (+/-4.2)
			SAMt99	19	7	6	17	21.5 (+/-5.0)
			ssearch	11	8	5	12	14.0 (+/-4.6)
			Superfamily	14	8	4	16	17.0 (+/-4.5)

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	51	1	3D-PSSM	30	15	13	35	22.8 (+/-3.7)
			BLAST	11	6	8	15	12.4 (+/-3.3)
			FUGUE	29	21	16	32	22.0 (+/-3.9)
			PSI-BLAST	15	11	6	19	13.1 (+/-3.3)
			SAMt99	32	14	15	30	23.8 (+/-3.9)
			ssearch	17	11	8	19	13.6 (+/-3.6)

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

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