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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		814	269	method/index.html

3D-PSSM		549	206	method/3dpssm.html
BLAST		791	264	method/blast.html
FUGUE		657	225	method/fugue.html
Libellula		88	45	method/libellula.html
Prospect		131	52	method/prospect.html
PSI-BLAST		796	268	method/psiblast.html
SAMt99		354	155	method/samt99.html
ssearch		790	265	method/ssearch.html
Superfamily		310	104	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	27	1	3D-PSSM	18	10	12	18	22.0 (+/-4.8)
			BLAST	8	6	6	9	13.0 (+/-3.9)
			FUGUE	17	12	16	19	20.8 (+/-4.6)
			Libellula	16	8	12	17	20.6 (+/-5.0)
			Prospect	19	12	14	16	24.2 (+/-4.9)
			PSI-BLAST	9	8	6	10	16.7 (+/-4.6)
			SAMt99	17	11	14	17	24.4 (+/-5.2)
			ssearch	10	10	5	13	14.5 (+/-4.5)

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	119	1	3D-PSSM	100	68	43	101	35.9 (+/-2.4)
			BLAST	56	36	31	64	24.4 (+/-2.5)
			FUGUE	89	66	39	95	31.0 (+/-2.6)
			PSI-BLAST	84	58	34	84	31.7 (+/-2.4)
			SAMt99	95	65	43	101	35.2 (+/-2.6)
			ssearch	68	56	31	73	26.0 (+/-2.8)
			Superfamily	89	62	40	92	31.9 (+/-2.6)

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	256	1	3D-PSSM	194	128	90	195	30.6 (+/-1.7)
			BLAST	100	64	62	111	20.6 (+/-1.6)
			FUGUE	178	131	92	188	27.8 (+/-1.8)
			PSI-BLAST	142	96	66	148	25.9 (+/-1.6)
			SAMt99	187	123	98	196	31.7 (+/-1.8)
			ssearch	129	102	67	139	21.9 (+/-1.8)

Last update: May 7, 2003
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva

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