Home - Secondary structure Comparative modelling Contacts Threading - search - FTP - Mirrors - Bottom

EVA summary for category threading, best of first 5 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		842	268	method/index.html

3D-PSSM		561	211	method/3dpssm.html
BLAST		819	264	method/blast.html
FUGUE		669	227	method/fugue.html
Libellula		93	49	method/libellula.html
Prospect		142	58	method/prospect.html
PSI-BLAST		825	267	method/psiblast.html
SAMt99		367	163	method/samt99.html
ssearch		818	264	method/ssearch.html
Superfamily		309	102	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:
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	31	1	3D-PSSM	25	20	17	25	36.0 (+/-5.2)
			BLAST	11	8	8	12	19.1 (+/-4.8)
			FUGUE	26	17	19	26	33.5 (+/-5.1)
			Libellula	24	16	18	25	36.1 (+/-5.4)
			Prospect	22	19	17	25	29.7 (+/-5.2)
			PSI-BLAST	14	11	8	15	23.6 (+/-5.3)
			SAMt99	22	17	15	23	32.9 (+/-5.5)
			ssearch	14	14	8	20	22.5 (+/-5.3)

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	119	1	3D-PSSM	104	88	53	106	42.9 (+/-2.3)
			BLAST	63	46	34	75	27.3 (+/-2.5)
			FUGUE	99	82	51	110	38.1 (+/-2.6)
			PSI-BLAST	90	73	40	91	35.7 (+/-2.4)
			SAMt99	101	80	52	106	40.6 (+/-2.6)
			ssearch	79	66	36	85	29.9 (+/-2.8)
			Superfamily	93	70	44	97	36.9 (+/-2.7)

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	268	1	3D-PSSM	226	181	125	232	38.7 (+/-1.7)
			BLAST	122	87	77	141	24.3 (+/-1.7)
			FUGUE	221	171	127	239	35.6 (+/-1.8)
			PSI-BLAST	173	130	88	181	31.8 (+/-1.7)
			SAMt99	210	164	115	218	37.8 (+/-1.8)
			ssearch	158	130	82	175	26.8 (+/-1.9)

Last update: Mar 28, 2003
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva

Home - Secondary structure Comparative modelling Contacts Threading - search - FTP - Mirrors - Top