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Table 1 AUC and elapsed time for 200 queries in the ASTRAL 95% data set.

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

       95% confidence interval
Method Platform Restarts Elapsed time AUC Standard error lower upper
SHEBA CPU - 25 h 22 m 0.931 0.004 0.924 0.938
SA Tableau Search CPU 4096 142 h 42 m 0.930 0.004 0.923 0.937
SA Tableau Search GTX 285 4096 4 h 11 m 0.930 0.004 0.923 0.937
SA Tableau Search Tesla C1060 4096 5 h 40 m 0.930 0.004 0.923 0.937
SA Tableau Search CPU 128 4 h 18 m 0.921 0.004 0.913 0.929
SA Tableau Search GTX 285 128 0 h 08 m 0.920 0.004 0.912 0.927
SA Tableau Search Tesla C1060 128 0 h 11 m 0.920 0.004 0.912 0.927
QP Tableau Search CPU - 157 h 51 m 0.914 0.004 0.906 0.922
LOCK2 CPU - 208 h 09 m 0.912 0.004 0.904 0.920
TableauSearch CPU - 1 h 11 m 0.858 0.005 0.848 0.867
TOPS CPU - 1 h 11 m 0.855 0.005 0.845 0.864
VAST CPU - 14 h 26 m 0.855 0.005 0.846 0.865
IR Tableau CPU - 0 h 01 m 0.854 0.005 0.844 0.864
YAKUSA CPU - 4 h 14 m 0.827 0.005 0.816 0.837
  1. Area under the ROC curve (AUC) and elapsed time for different methods on the 200 query set against the ASTRAL SCOP 95% sequence identity non-redundant database. The table is sorted by AUC descending.
  2. 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.
  3. SARF2 is not present in this table, as it is unable to process a data set this large, and DaliLite is not present as it exceeds the CPU time limit.