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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		610	247	method/index.html

3D-PSSM		417	194	method/3dpssm.html
BLAST		591	242	method/blast.html
FUGUE		496	211	method/fugue.html
Libellula		99	57	method/libellula.html
Prospect		124	60	method/prospect.html
PSI-BLAST		595	246	method/psiblast.html
SAMt99		199	118	method/samt99.html
ssearch		589	243	method/ssearch.html
Superfamily		245	106	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	26	1	3D-PSSM	17	12	12	18	21.6 (+/-4.1)
			BLAST	0	0	1	2	4.6 (+/-0.9)
			FUGUE	18	13	14	18	19.4 (+/-4.0)
			Libellula	16	8	12	18	20.5 (+/-4.0)
			Prospect	13	11	12	17	16.9 (+/-4.1)
			PSI-BLAST	5	3	5	8	8.8 (+/-2.3)
			SAMt99	13	9	10	14	17.6 (+/-4.2)
			ssearch	3	2	1	9	5.5 (+/-2.1)

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	59	1	3D-PSSM	39	25	20	42	28.7 (+/-3.6)
			BLAST	14	8	9	24	16.5 (+/-3.2)
			FUGUE	36	27	20	43	26.0 (+/-3.6)
			PSI-BLAST	20	8	7	21	15.7 (+/-2.5)
			SAMt99	35	22	15	39	25.8 (+/-3.8)
			ssearch	23	17	10	26	18.3 (+/-3.6)
			Superfamily	27	14	11	33	21.9 (+/-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	144	1	3D-PSSM	99	58	63	107	26.9 (+/-2.3)
			BLAST	25	11	25	44	14.1 (+/-2.0)
			FUGUE	96	69	65	110	25.0 (+/-2.4)
			PSI-BLAST	42	16	28	49	15.5 (+/-1.8)
			SAMt99	83	48	49	88	25.3 (+/-2.4)
			ssearch	48	31	29	63	16.7 (+/-2.3)

Last update: Jul 17, 2003
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva

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