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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		1277	241	method/index.html

3D-PSSM		803	182	method/3dpssm.html
BLAST		457	171	method/blast.html
FUGUE		561	153	method/fugue.html
Libellula		169	37	method/libellula.html
LOOPP		655	189	method/loopp.html
Prospect		166	33	method/prospect.html
SAMt99		534	136	method/samt99.html
ssearch		161	69	method/ssearch.html
Superfamily		234	79	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: 32 proteins and 8 methods (HTML - ASCII)
- set 2: 54 proteins and 7 methods (HTML - ASCII)
- set 3: 159 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	32	1	3D-PSSM	21	11	15	21	28.9 (+/-4.9)
			BLAST	15	3	8	15	18.5 (+/-3.7)
			FUGUE	23	15	20	25	29.6 (+/-4.7)
			Libellula	24	9	14	25	31.8 (+/-5.0)
			LOOPP	5	5	8	7	2.7 (+/-1.2)
			Prospect	23	16	17	22	27.9 (+/-4.6)
			SAMt99	22	9	18	25	36.4 (+/-5.5)
			ssearch	15	4	9	19	20.2 (+/-4.6)

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	54	1	3D-PSSM	42	17	20	42	34.7 (+/-3.8)
			BLAST	24	15	20	26	24.5 (+/-3.5)
			FUGUE	38	12	24	41	29.9 (+/-3.8)
			LOOPP	9	5	5	11	10.3 (+/-3.0)
			SAMt99	39	16	23	43	33.6 (+/-3.8)
			ssearch	31	20	20	32	25.3 (+/-3.9)
			Superfamily	36	13	19	37	28.1 (+/-3.9)

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	159	1	3D-PSSM	121	52	62	124	30.6 (+/-2.1)
			BLAST	67	30	46	77	19.9 (+/-1.9)
			FUGUE	113	49	70	124	29.4 (+/-2.2)
			LOOPP	27	13	19	39	7.0 (+/-1.4)
			SAMt99	116	46	71	123	32.9 (+/-2.3)
			ssearch	91	46	50	96	22.6 (+/-2.2)

Last update: Nov 21, 2002
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva

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