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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		633	260	method/index.html

3D-PSSM		458	210	method/3dpssm.html
BLAST		505	222	method/blast.html
FUGUE		538	228	method/fugue.html
Libellula		134	72	method/libellula.html
Prospect		143	70	method/prospect.html
PSI-BLAST		517	226	method/psiblast.html
SAMt99		210	129	method/samt99.html
ssearch		506	220	method/ssearch.html
Superfamily		285	123	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: 60 proteins and 7 methods (HTML - ASCII)
- set 3: 126 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	60	1	3D-PSSM	36	16	16	37	29.4 (+/-4.0)
			BLAST	17	9	11	22	18.1 (+/-3.5)
			FUGUE	29	20	16	35	29.4 (+/-4.2)
			PSI-BLAST	15	8	5	19	15.6 (+/-3.2)
			SAMt99	34	16	16	37	29.8 (+/-4.2)
			ssearch	19	13	13	23	19.1 (+/-3.8)
			Superfamily	28	14	12	31	24.2 (+/-3.9)

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	126	1	3D-PSSM	73	35	37	76	23.9 (+/-2.6)
			BLAST	22	10	19	32	13.2 (+/-2.2)
			FUGUE	62	46	38	70	24.4 (+/-2.7)
			PSI-BLAST	34	21	17	39	14.6 (+/-2.1)
			SAMt99	69	30	40	75	25.9 (+/-2.7)
			ssearch	35	23	24	43	16.1 (+/-2.6)

Last update: Jan 12, 2004
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva

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