Enriched TF PWMs in Promoters of E2F Target Genes
| TF | Number of promoters with hits | Number of hits | Analytical score | Rank relative to abundance in random sets |
| E2F | 28 | 35 | 1.9 × 10−10 | 1 |
| NF-Y | 44 | 64 | 1.7 × 10−14 | 1 |
| CREB | 28 | 41 | 2.5 × 10−5 | 1 |
| NRF-1 | 32 | 77 | 3.1 × 10−4 | 3 |
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A set of 103 promoters corresponding to E2F target genes reported by Ren et al. (2002) was scanned for overrepresented binding sites corresponding to 107 human TF PWMs. Four significantly enriched PWMs were found. Indicated for each one are the number of promoters with hits of the PWM and the total number of hits of the PWM (some promoters have multiple hits of a PWM), the analytical score for observing such enrichment, and the rank of the PWM's abundance in the E2F target set relative to its abundance in 10,000 sets of randomly selected promoters of the same size as that of the E2F target set. Similarity score thresholds for declaring hits were stringently determined to enable identification of real enrichments in the examined set. Therefore, the number of promoters having E2F-binding sites in this E2F target set is underestimated. Nevertheless, the observed occurrence rate of E2F is highly significant. Notably, the enrichment of the NF-Y PWM in this set is even more significant than the enrichment of the E2F PWM. Full lists of genes whose promoters were found to contain high scoring sites for the enriched TFs are provided in Supplemental Tables A1–A4 (available on line at www.genome.org).
