Comparison of CodingMotif and parametric methods for known binding motifs. A) All 4 of the top 4 motifs predicted by CodingMotif p-value are exact matches to the canonical motif for the human transcription factor GABP. For comparison, 3 of the top 4 motifs ranked by z-score, and 1 of the top 4 motifs ranked by the ratio of counts in the real sequence to the average in the null distribution, match the GABP canonical motif. B) All 4 of the top 4 motifs predicted by CodingMotif p-value match the canonical motif for NRSF. For motifs ranked by z-score 0/4 of the top motifs match the canonically known motif. 0/4 of the top motifs ranked by count-ratio match the canonically known motif.
Ding et al. BMC Bioinformatics 2012 13:32 doi:10.1186/1471-2105-13-32