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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
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:
- set 1: 19 proteins and 8 methods (HTML - ASCII)
- set 2: 48 proteins and 7 methods (HTML - ASCII)
- set 3: 114 proteins and 6 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)
			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	48	1	3D-PSSM	37	16	23	38	38.1 (+/-4.0)
			BLAST	23	17	19	30	29.0 (+/-4.1)
			FUGUE	34	16	24	39	37.2 (+/-4.2)
			PSI-BLAST	29	15	20	31	32.2 (+/-4.1)
			SAMt99	36	16	25	40	38.5 (+/-4.3)
			ssearch	29	22	20	32	31.6 (+/-4.6)
			Superfamily	31	16	23	36	34.4 (+/-4.4)

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	82	31	45	86	30.7 (+/-2.7)
			BLAST	50	30	33	58	22.4 (+/-2.5)
			FUGUE	79	38	48	89	30.7 (+/-2.7)
			PSI-BLAST	63	33	34	69	27.0 (+/-2.6)
			SAMt99	78	38	47	87	31.5 (+/-2.8)
			ssearch	62	38	33	66	24.7 (+/-2.9)

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

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