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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		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
LOOPP		483	184	method/loopp.html
Prospect		104	35	method/prospect.html
PSI-BLAST		478	206	method/psiblast.html
SAMt99		339	141	method/samt99.html
ssearch		318	156	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:
- set 1: 19 proteins and 9 methods (HTML - ASCII)
- set 2: 44 proteins and 8 methods (HTML - ASCII)
- set 3: 97 proteins and 7 methods (HTML - ASCII)
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	12	4	8	13	23.6 (+/-6.4)
			BLAST	7	3	4	7	15.3 (+/-4.9)
			FUGUE	12	8	12	15	21.9 (+/-5.7)
			Libellula	12	5	8	14	24.6 (+/-6.7)
			LOOPP	2	2	4	4	3.3 (+/-2.0)
			Prospect	13	8	10	12	24.9 (+/-6.3)
			PSI-BLAST	9	4	6	9	21.2 (+/-5.8)
			SAMt99	11	4	9	13	25.1 (+/-6.6)
			ssearch	7	3	4	10	16.5 (+/-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	44	1	3D-PSSM	33	14	20	34	38.7 (+/-4.3)
			BLAST	20	15	17	27	29.3 (+/-4.4)
			FUGUE	30	13	21	35	37.2 (+/-4.5)
			LOOPP	9	6	6	14	14.6 (+/-4.1)
			PSI-BLAST	27	15	19	29	33.4 (+/-4.3)
			SAMt99	33	13	22	37	38.8 (+/-4.6)
			ssearch	26	20	18	29	32.6 (+/-4.9)
			Superfamily	28	14	20	33	34.1 (+/-4.7)

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	97	1	3D-PSSM	66	25	40	72	30.7 (+/-3.0)
			BLAST	39	24	29	47	21.9 (+/-2.8)
			FUGUE	63	32	43	74	30.5 (+/-3.1)
			LOOPP	15	10	11	24	9.0 (+/-2.1)
			PSI-BLAST	53	27	32	57	27.1 (+/-2.8)
			SAMt99	65	29	41	73	31.2 (+/-3.1)
			ssearch	51	34	29	56	25.2 (+/-3.2)

Last update: Nov 26, 2002
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva

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