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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		814	269	method/index.html

3D-PSSM		549	206	method/3dpssm.html
BLAST		791	264	method/blast.html
FUGUE		657	225	method/fugue.html
Libellula		88	45	method/libellula.html
Prospect		131	52	method/prospect.html
PSI-BLAST		796	268	method/psiblast.html
SAMt99		354	155	method/samt99.html
ssearch		790	265	method/ssearch.html
Superfamily		310	104	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	27	1	3D-PSSM	21	16	16	21	31.3 (+/-5.1)
			BLAST	8	6	7	9	14.3 (+/-3.9)
			FUGUE	22	14	18	22	28.4 (+/-4.9)
			Libellula	20	13	16	21	31.5 (+/-5.4)
			Prospect	19	17	16	21	26.1 (+/-4.9)
			PSI-BLAST	11	9	7	12	18.6 (+/-4.8)
			SAMt99	18	13	14	19	27.7 (+/-5.4)
			ssearch	10	10	7	16	16.3 (+/-4.5)

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	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	256	1	3D-PSSM	215	170	120	221	37.3 (+/-1.7)
			BLAST	114	81	73	134	23.5 (+/-1.7)
			FUGUE	210	161	121	228	34.1 (+/-1.8)
			PSI-BLAST	163	121	83	171	30.4 (+/-1.7)
			SAMt99	199	153	110	207	36.4 (+/-1.8)
			ssearch	147	119	77	164	25.2 (+/-1.9)

Last update: May 7, 2003
Contact: rost@columbia.edu
WWW: http://cubic.bioc.columbia.edu/eva

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