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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		625	257	method/index.html

3D-PSSM		450	207	method/3dpssm.html
BLAST		499	219	method/blast.html
FUGUE		530	225	method/fugue.html
Libellula		130	70	method/libellula.html
Prospect		138	67	method/prospect.html
PSI-BLAST		509	223	method/psiblast.html
SAMt99		208	127	method/samt99.html
ssearch		498	217	method/ssearch.html
Superfamily		278	120	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: 14 proteins and 8 methods (HTML - ASCII)
- set 2: 58 proteins and 7 methods (HTML - ASCII)
- set 3: 124 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	14	1	3D-PSSM	8	4	5	8	24.5 (+/-7.1)
			BLAST	0	0	1	1	8.6 (+/-3.6)
			FUGUE	7	5	8	8	27.3 (+/-7.7)
			Libellula	6	3	4	8	16.4 (+/-5.5)
			Prospect	9	6	7	7	17.2 (+/-5.8)
			PSI-BLAST	3	2	2	2	10.7 (+/-3.8)
			SAMt99	6	4	6	9	29.2 (+/-7.5)
			ssearch	2	1	1	4	9.9 (+/-5.9)

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	58	1	3D-PSSM	35	16	14	36	28.9 (+/-4.0)
			BLAST	16	9	10	21	17.2 (+/-3.4)
			FUGUE	28	20	14	34	28.9 (+/-4.2)
			PSI-BLAST	14	8	4	18	14.7 (+/-3.1)
			SAMt99	33	16	15	36	29.3 (+/-4.2)
			ssearch	18	12	11	22	18.2 (+/-3.8)
			Superfamily	27	14	11	30	23.6 (+/-3.8)

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	124	1	3D-PSSM	72	35	35	75	23.6 (+/-2.5)
			BLAST	21	10	18	31	12.7 (+/-2.1)
			FUGUE	61	46	36	69	24.0 (+/-2.7)
			PSI-BLAST	33	21	16	38	14.2 (+/-2.0)
			SAMt99	68	30	39	74	25.6 (+/-2.7)
			ssearch	34	22	22	42	15.6 (+/-2.5)

Last update: Dec 15, 2003
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva

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