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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		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:
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	6	4	5	6	25.4 (+/-7.4)
			BLAST	0	0	0	1	4.2 (+/-1.1)
			FUGUE	7	6	5	8	24.4 (+/-7.7)
			Libellula	6	5	4	6	24.6 (+/-7.6)
			Prospect	5	4	4	7	15.7 (+/-6.3)
			PSI-BLAST	2	2	2	2	9.7 (+/-4.9)
			SAMt99	6	4	3	6	25.1 (+/-7.5)
			ssearch	1	1	0	4	8.4 (+/-6.4)

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	33	1	3D-PSSM	21	13	11	23	27.8 (+/-4.9)
			BLAST	10	8	5	14	14.5 (+/-4.2)
			FUGUE	23	16	12	27	28.1 (+/-5.0)
			PSI-BLAST	12	7	5	14	15.7 (+/-4.1)
			SAMt99	20	11	6	19	24.1 (+/-5.1)
			ssearch	14	10	6	16	16.6 (+/-4.8)
			Superfamily	15	9	5	19	21.5 (+/-5.0)

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	37	21	23	39	28.4 (+/-3.7)
			BLAST	12	8	8	18	13.7 (+/-3.3)
			FUGUE	40	28	24	45	27.4 (+/-3.9)
			PSI-BLAST	20	13	10	22	17.1 (+/-3.4)
			SAMt99	35	19	15	33	26.0 (+/-3.9)
			ssearch	21	13	9	27	16.5 (+/-3.8)

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

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