Table 1.
Composition of the Reference Site Set
|
|
Experimentally verified in: |
||||
|---|---|---|---|---|---|
|
|
Human |
Mouse |
Rat |
||
| TransFac matrices | 24 | 11 | 14 | ||
| Ensembl genes | 35 | 14 | 15 | ||
| TransFac sites
|
52
|
17
|
19
|
||
-
TFBSs that are experimentally verified in human, mouse or rat gene with the target gene having an annotated ortholog in at least one other organism (human, mouse, rat, fugu and zebrafish) constitute the reference set. Because some reference sites are represented by the same PWMs and can occur in several genes, and because several different reference sites can occur in the same gene, the numbers of TransFac sites and matrices and Ensembl genes are different. A detailed list of the reference sites is provided in Supplemental Table S1.
