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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		835	266	method/index.html

3D-PSSM		548	200	method/3dpssm.html
BLAST		812	262	method/blast.html
FUGUE		649	214	method/fugue.html
Libellula		81	39	method/libellula.html
Prospect		130	47	method/prospect.html
PSI-BLAST		302	132	method/psiblast.html
SAMt99		354	151	method/samt99.html
ssearch		563	200	method/ssearch.html
Superfamily		306	101	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	13	10	7	12	31.8 (+/-7.2)
			BLAST	5	4	4	5	15.3 (+/-5.8)
			FUGUE	12	8	9	13	30.5 (+/-6.9)
			Libellula	11	7	10	11	34.4 (+/-7.8)
			Prospect	10	9	8	12	27.1 (+/-7.4)
			PSI-BLAST	7	6	3	8	19.1 (+/-6.4)
			SAMt99	11	9	8	10	28.5 (+/-7.3)
			ssearch	7	7	4	8	19.2 (+/-6.9)

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	10	1	3D-PSSM	7	6	3	7	32.4 (+/-7.6)
			BLAST	5	4	3	6	15.2 (+/-5.7)
			FUGUE	8	6	3	8	26.3 (+/-6.5)
			PSI-BLAST	6	4	2	6	20.8 (+/-5.6)
			SAMt99	7	4	2	7	18.1 (+/-6.2)
			ssearch	6	5	2	6	10.8 (+/-3.9)
			Superfamily	7	6	2	7	21.4 (+/-6.5)

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	47	1	3D-PSSM	35	27	23	37	37.0 (+/-4.3)
			BLAST	17	13	16	21	21.1 (+/-3.9)
			FUGUE	35	25	27	40	33.8 (+/-4.2)
			PSI-BLAST	22	17	15	28	26.9 (+/-4.1)
			SAMt99	32	23	21	33	32.1 (+/-4.4)
			ssearch	26	20	16	29	22.2 (+/-4.2)

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

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