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Table 3 Tests without motif discovery: classification-based results

From: MCOIN: a novel heuristic for determining transcription factor binding site motif width

Conservation Known width (w) MCOIN (w ± 4) E-values (w ± 4)
(mean bits/col) sSn sPPV AUC sSn sPPV AUC sSn sPPV AUC
2.00 1.00 1.00 1.00 1.00 1.00 1.00 1.00 1.00 1.00
1.49 0.98 0.94 1.00 0.98 0.94 1.00 0.97 0.93 1.00
1.08 0.80 0.93 1.00 0.80 0.93 1.00 0.82 0.79 1.00
0.76 0.49 0.89 0.99 0.49 0.89 0.99 0.56 0.71 0.99
0.51 0.23 0.79 0.99 0.23 0.79 0.99 0.23 0.77 0.98
  1. Mean site-level sensitivity (sSn), positive predictive value (sPPV) and area under the ROC curve (AUC) for five collections of realistic synthetic data at varying levels of motif conservation. In these tests, the motif discovery phase of the algorithm was removed and the set of candidate models constructed as if the motif discovery algorithm had performed as well as possible at each candidate width.