Figure 3.

Reconstructed transcriptional regulation model of the yeast cell cycle. Segments of the cycle contain motif combinations. The TF and motif combinations in black were known previously and are also confirmed here. Those in red are new combinations (or previously poorly characterized combinations). TFs and motifs in parentheses are those we could not detect (for example, because the TF was not included in the ChIP experiments) but whose presence is indicated by some other experimental work [25,46]. Almost all TFs appear as elements of a combination. {Swi5, Ste12, Dig1} shows a joint-process combination between cell cycle and pheromone response or filamentous growth (see Discussion).