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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		610	247	method/index.html

3D-PSSM		417	194	method/3dpssm.html
BLAST		591	242	method/blast.html
FUGUE		496	211	method/fugue.html
Libellula		99	57	method/libellula.html
Prospect		124	60	method/prospect.html
PSI-BLAST		596	246	method/psiblast.html
SAMt99		199	118	method/samt99.html
ssearch		589	243	method/ssearch.html
Superfamily		245	106	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: 26 proteins and 8 methods (HTML - ASCII)
- set 2: 59 proteins and 7 methods (HTML - ASCII)
- set 3: 144 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	26	1	3D-PSSM	12	7	8	14	13.1 (+/-3.4)
			BLAST	0	0	1	2	3.2 (+/-0.9)
			FUGUE	11	9	11	13	12.2 (+/-3.6)
			Libellula	10	5	7	12	12.5 (+/-3.4)
			Prospect	12	9	10	12	14.1 (+/-4.0)
			PSI-BLAST	2	1	2	3	3.6 (+/-0.9)
			SAMt99	11	9	10	12	16.5 (+/-4.1)
			ssearch	2	2	0	4	4.2 (+/-2.1)

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	59	1	3D-PSSM	35	16	13	35	23.0 (+/-3.4)
			BLAST	12	5	9	16	14.1 (+/-3.1)
			FUGUE	27	17	12	31	21.3 (+/-3.6)
			PSI-BLAST	15	4	4	14	12.8 (+/-2.6)
			SAMt99	31	15	13	33	22.0 (+/-3.6)
			ssearch	17	12	7	18	14.2 (+/-3.3)
			Superfamily	25	12	10	29	18.2 (+/-3.4)

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	144	1	3D-PSSM	79	38	39	82	20.5 (+/-2.2)
			BLAST	21	7	21	30	11.8 (+/-1.9)
			FUGUE	67	47	42	76	20.1 (+/-2.3)
			PSI-BLAST	22	6	12	28	10.5 (+/-1.5)
			SAMt99	74	34	45	79	22.4 (+/-2.3)
			ssearch	38	23	22	44	13.5 (+/-2.2)

Last update: Jul 15, 2003
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva

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