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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		789	251	method/index.html

3D-PSSM		523	195	method/3dpssm.html
BLAST		575	217	method/blast.html
FUGUE		442	176	method/fugue.html
Libellula		81	39	method/libellula.html
Prospect		122	46	method/prospect.html
PSI-BLAST		609	226	method/psiblast.html
SAMt99		351	148	method/samt99.html
ssearch		439	188	method/ssearch.html
Superfamily		221	87	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	20	1	3D-PSSM	16	11	13	16	35.4 (+/-6.3)
			BLAST	8	5	7	9	17.7 (+/-4.8)
			FUGUE	17	13	14	18	30.9 (+/-5.9)
			Libellula	15	8	11	16	34.6 (+/-6.6)
			Prospect	14	12	12	16	28.4 (+/-6.0)
			PSI-BLAST	11	7	7	12	25.0 (+/-5.7)
			SAMt99	13	6	10	15	30.8 (+/-6.7)
			ssearch	8	5	7	13	20.0 (+/-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	48	1	3D-PSSM	40	25	28	41	46.2 (+/-3.7)
			BLAST	26	21	20	35	33.7 (+/-3.9)
			FUGUE	39	24	28	45	44.3 (+/-4.0)
			PSI-BLAST	31	18	23	34	36.6 (+/-3.9)
			SAMt99	38	25	27	43	44.1 (+/-4.2)
			ssearch	32	25	22	37	36.1 (+/-4.5)
			Superfamily	33	19	24	38	39.9 (+/-4.5)

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	120	1	3D-PSSM	97	54	59	101	38.1 (+/-2.6)
			BLAST	60	42	40	69	25.5 (+/-2.4)
			FUGUE	99	61	60	107	36.7 (+/-2.6)
			PSI-BLAST	74	48	43	82	32.3 (+/-2.5)
			SAMt99	90	55	52	98	36.9 (+/-2.8)
			ssearch	72	48	40	80	28.2 (+/-2.8)

Last update: Feb 24, 2003
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva

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