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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		756	243	method/index.html

3D-PSSM		508	187	method/3dpssm.html
BLAST		543	209	method/blast.html
FUGUE		411	161	method/fugue.html
Libellula		74	35	method/libellula.html
Prospect		104	35	method/prospect.html
PSI-BLAST		579	218	method/psiblast.html
SAMt99		339	141	method/samt99.html
ssearch		408	180	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	19	1	3D-PSSM	15	11	12	15	35.0 (+/-6.6)
			BLAST	7	4	6	8	16.4 (+/-4.9)
			FUGUE	16	12	13	17	30.0 (+/-6.1)
			Libellula	14	7	10	15	33.2 (+/-6.8)
			Prospect	13	12	11	15	27.0 (+/-6.2)
			PSI-BLAST	10	6	6	11	24.0 (+/-5.9)
			SAMt99	12	6	9	14	29.1 (+/-6.8)
			ssearch	7	5	6	12	18.4 (+/-6.0)

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	114	1	3D-PSSM	93	51	57	97	37.7 (+/-2.6)
			BLAST	57	41	39	67	25.8 (+/-2.5)
			FUGUE	95	57	57	103	36.4 (+/-2.7)
			PSI-BLAST	70	44	41	78	31.6 (+/-2.6)
			SAMt99	85	52	50	94	36.0 (+/-2.8)
			ssearch	67	47	38	75	28.0 (+/-2.9)

Last update: Nov 30, 2002
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva

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