Table 7

AUC and elapsed time for some motif (substructure) queries.

95% confidence interval

Query

Method

Platform

Restarts

Elapsed time

AUC

standard error

lower

upper


d1ubia_

SA

GTX 285

128

00 m 03 s

0.918

0.011

0.896

0.940

d1ubia_

SA

CPU

128

01 m 17 s

0.912

0.011

0.890

0.935

d1ubia_

QP

CPU

-

05 m 11 s

0.902

0.012

0.879

0.926

d1ubia_

TOPS

CPU

-

00 m 10 s

0.894

0.012

0.870

0.918


β-grasp

SA

CPU

128

01 m 11 s

0.939

0.010

0.920

0.958

β-grasp

QP

CPU

-

02 m 01 s

0.938

0.010

0.918

0.957

β-grasp

SA

GTX 285

128

00 m 03 s

0.934

0.010

0.914

0.954

β-grasp

TOPS

CPU

-

00 m 09 s

0.847

0.014

0.819

0.875


serpin B/C sheet

SA

GTX 285

128

00 m 03 s

0.993

0.013

0.968

1.019

serpin B/C sheet

SA

CPU

128

01 m 19 s

0.991

0.015

0.962

1.021

serpin B/C sheet

QP

CPU

-

08 m 16 s

0.986

0.019

0.949

1.023

serpin B/C sheet

TOPS

CPU

-

00 m 24 s

0.491

0.054

0.385

0.597


Area under the ROC curve (AUC) and elapsed time for some motif (substructure) queries on the ASTRAL SCOP 95% sequence identity non-redundant database. In the Method column, QP refers to the QP Tableau Search method, SA refers to SA Tableau Search. In the Platform column, either a GPU card is described, or CPU, which is a single core of an AMD Quad Core Opteron (2.3 GHz, 32 GB RAM) running Linux. The results for each query are sorted by AUC descending.

Stivala et al. BMC Bioinformatics 2010 11:446   doi:10.1186/1471-2105-11-446

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