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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		649	268	method/index.html

3D-PSSM		469	217	method/3dpssm.html
BLAST		521	230	method/blast.html
FUGUE		550	235	method/fugue.html
Libellula		144	78	method/libellula.html
Prospect		144	71	method/prospect.html
PSI-BLAST		533	234	method/psiblast.html
SAMt99		216	135	method/samt99.html
ssearch		522	228	method/ssearch.html
Superfamily		297	130	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: 15 proteins and 8 methods (HTML - ASCII)
- set 2: 66 proteins and 7 methods (HTML - ASCII)
- set 3: 132 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	15	1	3D-PSSM	8	4	6	8	22.8 (+/-6.8)
			BLAST	0	0	1	1	8.0 (+/-3.4)
			FUGUE	7	5	9	8	25.5 (+/-7.4)
			Libellula	6	3	5	8	15.4 (+/-5.2)
			Prospect	9	6	7	7	16.1 (+/-5.5)
			PSI-BLAST	3	2	2	2	10.0 (+/-3.6)
			SAMt99	6	4	6	9	27.2 (+/-7.2)
			ssearch	2	2	2	4	9.2 (+/-5.5)

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	66	1	3D-PSSM	38	17	17	40	28.6 (+/-3.8)
			BLAST	17	9	12	23	17.7 (+/-3.3)
			FUGUE	31	21	17	38	29.1 (+/-4.0)
			PSI-BLAST	15	8	6	19	15.5 (+/-3.1)
			SAMt99	37	18	17	39	29.0 (+/-3.9)
			ssearch	20	13	14	25	18.8 (+/-3.6)
			Superfamily	31	16	14	35	25.2 (+/-3.7)

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	132	1	3D-PSSM	75	36	38	79	23.7 (+/-2.5)
			BLAST	22	10	20	33	13.3 (+/-2.1)
			FUGUE	64	47	39	73	24.4 (+/-2.7)
			PSI-BLAST	34	21	18	39	14.6 (+/-2.0)
			SAMt99	72	32	41	77	25.7 (+/-2.6)
			ssearch	36	23	25	45	16.1 (+/-2.5)

Last update: Feb 23, 2004
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva

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