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Nature DOI:10.1038/nature02800

Transcriptional regulatory code of a eukaryotic genome.

Publication TypeJournal Article
Year of Publication2004
AuthorsHarbison, CT, D Gordon, B, Lee, TIhn, Rinaldi, NJ, Macisaac, KD, Danford, TW, Hannett, NM, Tagne, J-B, Reynolds, DB, Yoo, J, Jennings, EG, Zeitlinger, J, Pokholok, DK, Kellis, M, P Rolfe, A, Takusagawa, KT, Lander, ES, Gifford, DK, Fraenkel, E, Young, RA
Date Published2004 Sep 02
KeywordsBase Sequence, Binding Sites, Conserved Sequence, Eukaryotic Cells, Genome, Fungal, Promoter Regions, Genetic, Response Elements, Saccharomyces, Substrate Specificity, Transcription Factors, Transcription, Genetic

DNA-binding transcriptional regulators interpret the genome's regulatory code by binding to specific sequences to induce or repress gene expression. Comparative genomics has recently been used to identify potential cis-regulatory sequences within the yeast genome on the basis of phylogenetic conservation, but this information alone does not reveal if or when transcriptional regulators occupy these binding sites. We have constructed an initial map of yeast's transcriptional regulatory code by identifying the sequence elements that are bound by regulators under various conditions and that are conserved among Saccharomyces species. The organization of regulatory elements in promoters and the environment-dependent use of these elements by regulators are discussed. We find that environment-specific use of regulatory elements predicts mechanistic models for the function of a large population of yeast's transcriptional regulators.


Alternate JournalNature
PubMed ID15343339
PubMed Central IDPMC3006441
Grant ListR01 HG002668 / HG / NHGRI NIH HHS / United States
R01 HG002668-01 / HG / NHGRI NIH HHS / United States
R01 HG004037 / HG / NHGRI NIH HHS / United States