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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		856	273	method/index.html

3D-PSSM		564	213	method/3dpssm.html
BLAST		833	269	method/blast.html
FUGUE		673	230	method/fugue.html
Libellula		95	50	method/libellula.html
Prospect		145	60	method/prospect.html
PSI-BLAST		838	272	method/psiblast.html
SAMt99		369	165	method/samt99.html
ssearch		832	269	method/ssearch.html
Superfamily		313	105	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	32	1	3D-PSSM	25	20	17	26	37.5 (+/-5.3)
			BLAST	11	8	8	13	20.9 (+/-5.0)
			FUGUE	26	17	19	27	35.0 (+/-5.2)
			Libellula	24	16	18	26	37.5 (+/-5.4)
			Prospect	22	19	17	26	31.2 (+/-5.2)
			PSI-BLAST	14	11	8	16	25.3 (+/-5.4)
			SAMt99	22	17	15	24	34.5 (+/-5.6)
			ssearch	14	14	8	21	24.5 (+/-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	121	1	3D-PSSM	105	89	54	108	43.6 (+/-2.3)
			BLAST	64	47	35	77	28.1 (+/-2.5)
			FUGUE	100	83	52	112	38.9 (+/-2.6)
			PSI-BLAST	91	74	41	93	36.5 (+/-2.4)
			SAMt99	102	81	53	108	41.4 (+/-2.6)
			ssearch	80	67	37	87	30.8 (+/-2.8)
			Superfamily	94	71	45	99	37.7 (+/-2.7)

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	270	1	3D-PSSM	227	182	126	234	39.1 (+/-1.7)
			BLAST	123	88	78	143	24.7 (+/-1.7)
			FUGUE	222	172	128	241	35.9 (+/-1.8)
			PSI-BLAST	174	131	89	183	32.2 (+/-1.7)
			SAMt99	211	165	116	220	38.2 (+/-1.8)
			ssearch	159	131	83	177	27.2 (+/-1.9)

Last update: May 6, 2003
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva

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