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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		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	22	13	13	23	29.3 (+/-5.3)
			BLAST	11	8	7	13	19.6 (+/-5.0)
			FUGUE	21	15	17	24	28.4 (+/-5.2)
			Libellula	20	10	14	22	28.1 (+/-5.5)
			Prospect	22	14	15	21	28.6 (+/-5.2)
			PSI-BLAST	12	10	6	14	23.1 (+/-5.3)
			SAMt99	21	14	15	22	29.7 (+/-5.3)
			ssearch	14	13	6	18	22.6 (+/-5.4)

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	101	69	44	103	36.6 (+/-2.4)
			BLAST	57	36	32	66	25.2 (+/-2.5)
			FUGUE	90	67	40	97	31.9 (+/-2.6)
			PSI-BLAST	85	59	35	86	32.5 (+/-2.4)
			SAMt99	96	66	44	103	35.5 (+/-2.6)
			ssearch	69	57	32	75	26.9 (+/-2.8)
			Superfamily	90	63	41	94	32.7 (+/-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	270	1	3D-PSSM	206	138	96	208	32.5 (+/-1.7)
			BLAST	109	69	67	120	21.8 (+/-1.7)
			FUGUE	190	141	98	201	29.7 (+/-1.8)
			PSI-BLAST	153	105	71	159	27.7 (+/-1.7)
			SAMt99	199	133	104	209	33.4 (+/-1.8)
			ssearch	141	113	73	152	23.9 (+/-1.9)

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

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