BMC Bioinformatics

Table 7 AUC and elapsed time for some motif (substructure) queries.

From: Fast and accurate protein substructure searching with simulated annealing and GPUs

							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.

Back to article page

ISSN: 1471-2105

Contact us

General enquiries: journalsubmissions@springernature.com