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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		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:
- set 1: 18 proteins and 8 methods (HTML - ASCII)
- set 2: 44 proteins and 7 methods (HTML - ASCII)
- set 3: 127 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	18	1	3D-PSSM	8	3	6	9	13.5 (+/-5.3)
			BLAST	0	0	1	2	5.8 (+/-4.0)
			FUGUE	7	5	9	10	12.8 (+/-5.7)
			Libellula	7	3	5	9	11.9 (+/-4.9)
			Prospect	9	5	8	7	14.8 (+/-5.1)
			PSI-BLAST	0	0	1	1	6.6 (+/-4.2)
			SAMt99	7	4	7	8	14.1 (+/-4.3)
			ssearch	1	1	0	4	5.4 (+/-4.4)

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	44	1	3D-PSSM	27	11	10	27	27.1 (+/-4.4)
			BLAST	11	5	9	16	18.4 (+/-4.2)
			FUGUE	20	13	10	25	24.0 (+/-4.6)
			PSI-BLAST	12	4	3	13	16.8 (+/-3.6)
			SAMt99	23	9	10	26	22.8 (+/-4.3)
			ssearch	15	9	6	17	17.3 (+/-4.3)
			Superfamily	21	9	9	24	22.4 (+/-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	127	1	3D-PSSM	67	29	35	70	20.8 (+/-2.4)
			BLAST	20	8	21	30	13.3 (+/-2.2)
			FUGUE	57	40	37	67	19.7 (+/-2.5)
			PSI-BLAST	19	6	11	26	11.6 (+/-1.9)
			SAMt99	63	27	39	68	21.5 (+/-2.5)
			ssearch	33	19	19	40	13.2 (+/-2.3)

Last update: May 13, 2003
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva

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