Cellular growth is ensured by alternation of DNA duplication and cell division cycles. This alternation is coordinated by the interplay between enzymatic activities, called kinases, and transcription factors, to keep the cell cycle timing. Here we investigate whether transcription factors may serve as hubs connecting multi-scale cellular networks. A variant of chromatin immunoprecipitation, called ChIP-exo, was performed to identify targets of Forkhead (Fkh) transcription factors across the budding yeast genome. Data analyses indicate that the Fkh-mediated transcriptional program may activate metabolic pathways and synchronize kinase activities to guarantee alternation of DNA duplication and cell division, thereby a timely cell’s cycling.