Table 1.
The seven clustered patterns over-represented in the activated response to stimulus (GO:0050896) gene set and under-represented in the repressed response to stimulus gene set
| Pattern | Activated genes | Repressed genes | P-value | min P | Ac | ||
|---|---|---|---|---|---|---|---|
| occ | pro | occ | pro | ||||
| TGGAAd/TTCCA | 651 | 139 | 508 | 139 | 5E−05 | 5E−05 | S000403 |
| GGAAAANG/CNTTTTCC | 62 | 50 | 23 | 23 | 2E−04 | 2E−04 | S000453 |
| CATNNCGG/CCGNNATG | 36 | 34 | 9 | 9 | 3E−04 | 3E−04 | S000250 |
| TGCGANNC/GNNTCGCA | 38 | 36 | 11 | 11 | 4E−04 | 4E−04 | |
| GTVATCCT/AGGATBAC | 26 | 23 | 5 | 4 | 1E−03 | 1E−04 | S000470 |
| TNCNAGG/CCTNGNA | 200 | 100 | 127 | 86 | 7E−04 | 7E−04 | |
| CTGAGGAA/TTCCTCAG | 14 | 14 | 1 | 1 | 3E−03 | 3E−04 | S000473 |
In the table occ is the pattern occurrence, pro is the number of promoters with the pattern, P-value is the significance of the clustered pattern, min P is the minimum P-value of the original patterns used in clustering and Ac is the accession code of the best match found in PLACE (25).