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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		789	251	method/index.html

3D-PSSM		523	195	method/3dpssm.html
BLAST		575	217	method/blast.html
FUGUE		442	176	method/fugue.html
Libellula		81	39	method/libellula.html
Prospect		122	46	method/prospect.html
PSI-BLAST		609	226	method/psiblast.html
SAMt99		351	148	method/samt99.html
ssearch		439	188	method/ssearch.html
Superfamily		221	87	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: 20 proteins and 8 methods (HTML - ASCII)
- set 2: 48 proteins and 7 methods (HTML - ASCII)
- set 3: 120 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	20	1	3D-PSSM	13	4	9	14	24.6 (+/-6.2)
			BLAST	8	4	5	8	16.7 (+/-4.9)
			FUGUE	13	8	13	16	23.2 (+/-5.6)
			Libellula	12	5	8	14	23.5 (+/-6.5)
			Prospect	14	8	11	13	26.4 (+/-6.2)
			PSI-BLAST	10	5	7	10	22.3 (+/-5.6)
			SAMt99	12	4	10	14	27.0 (+/-6.6)
			ssearch	8	3	5	11	18.2 (+/-5.8)

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	48	1	3D-PSSM	37	16	23	38	38.1 (+/-4.0)
			BLAST	23	17	19	30	29.0 (+/-4.1)
			FUGUE	34	16	24	39	37.2 (+/-4.2)
			PSI-BLAST	29	15	20	31	32.2 (+/-4.1)
			SAMt99	36	16	25	40	38.5 (+/-4.3)
			ssearch	29	22	20	32	31.6 (+/-4.6)
			Superfamily	31	16	23	36	34.4 (+/-4.4)

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	120	1	3D-PSSM	86	34	47	90	31.3 (+/-2.7)
			BLAST	53	31	34	60	22.1 (+/-2.4)
			FUGUE	83	41	50	93	30.8 (+/-2.7)
			PSI-BLAST	67	37	36	73	27.7 (+/-2.5)
			SAMt99	83	40	49	91	32.3 (+/-2.7)
			ssearch	67	38	35	71	25.0 (+/-2.8)

Last update: Feb 24, 2003
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva

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