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Table 8 Experimental results on the E. coli benchmark.

From: Discovering multiple realistic TFBS motifs based on a generalized model

Algorithms Nucleotide level (n) Binding site level (s)
  nPC nSn nPPV nF sPC sSn sPPV sF
GALF-G (15) 0.260 0.290 0.309 0.300 0.386 0.538 0.520 0.529
GALF-G (rg) 0.254 0.297 0.304 0.301 0.379 0.620 0.502 0.555
AlignACE 0.128 0.198 0.152 0.172 0.234 0.355 0.335 0.345
BioProspector 0.174 0.205 0.270 0.233 0.294 0.424 0.374 0.397
MDScan 0.149 0.177 0.230 0.200 0.240 0.328 0.355 0.341
MEME 0.158 0.259 0.199 0.225 0.295 0.461 0.436 0.448
MotifSampler 0.153 0.179 0.237 0.204 0.302 0.331 0.476 0.390
Weeder 0.152 0.162 0.204 0.181 0.307 0.543 0.387 0.452
  1. Prediction accuracy on the ECRDB62A benchmark of E. Coli at nucleotide, binding site levels. GALF-G (15) was run with the fixed width 15 and GALF-G (rg) was run with the range [10,20]. The best results are bold.