title: Transcriptional regulatory networks in Saccharomyces cerevisiae.
abstract: We have determined how most of the transcriptional regulators encoded in the eukaryote Saccharomyces cerevisiae associate with genes across the genome in living cells. Just as maps of metabolic networks describe the potential pathways that may be used by a cell to accomplish metabolic processes, this network of regulator-gene interactions describes potential pathways yeast cells can use to regulate global gene expression programs. We use this information to identify network motifs, the simplest units of network architecture, and demonstrate that an automated process can use motifs to assemble a transcriptional regulatory network structure. Our results reveal that eukaryotic cellular functions are highly connected through networks of transcriptional regulators that regulate other transcriptional regulators.
authors.affiliation: Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, MA 02142, USA.
authors.forename: Tong Ihn
authors.initials: TI
authors.lastname: Lee
authors.forename: Nicola J
authors.initials: NJ
authors.lastname: Rinaldi
authors.forename: François
authors.initials: F
authors.lastname: Robert
authors.forename: Duncan T
authors.initials: DT
authors.lastname: Odom
authors.forename: Ziv
authors.initials: Z
authors.lastname: Bar-Joseph
authors.forename: Georg K
authors.initials: GK
authors.lastname: Gerber
authors.forename: Nancy M
authors.initials: NM
authors.lastname: Hannett
authors.forename: Christopher T
authors.initials: CT
authors.lastname: Harbison
authors.forename: Craig M
authors.initials: CM
authors.lastname: Thompson
authors.forename: Itamar
authors.initials: I
authors.lastname: Simon
authors.forename: Julia
authors.initials: J
authors.lastname: Zeitlinger
authors.forename: Ezra G
authors.initials: EG
authors.lastname: Jennings
authors.forename: Heather L
authors.initials: HL
authors.lastname: Murray
authors.forename: D Benjamin
authors.initials: DB
authors.lastname: Gordon
authors.forename: Bing
authors.initials: B
authors.lastname: Ren
authors.forename: John J
authors.initials: JJ
authors.lastname: Wyrick
authors.forename: Jean-Bosco
authors.initials: JB
authors.lastname: Tagne
authors.forename: Thomas L
authors.initials: TL
authors.lastname: Volkert
authors.forename: Ernest
authors.initials: E
authors.lastname: Fraenkel
authors.forename: David K
authors.initials: DK
authors.lastname: Gifford
authors.forename: Richard A
authors.initials: RA
authors.lastname: Young
mesh_terms: D000465:Algorithms; D002453:Cell Cycle; D019295:Computational Biology; D004271:DNA, Fungal / Q000235:genetics / Q000378:metabolism; D025461:Feedback, Physiological; D020869:Gene Expression Profiling; D015966:Gene Expression Regulation, Fungal; D005800:Genes, Fungal; D016681:Genome, Fungal; D008957:Models, Genetic; D011401:Promoter Regions, Genetic; D011485:Protein Binding; D012441:Saccharomyces cerevisiae / Q000166:cytology / Q000235:genetics* / Q000254:growth & development / Q000378:metabolism; D029701:Saccharomyces cerevisiae Proteins / Q000235:genetics / Q000378:metabolism*; D014157:Transcription Factors / Q000235:genetics / Q000378:metabolism*; D014158:Transcription, Genetic
chemical_list: D004271:DNA, Fungal; D029701:Saccharomyces cerevisiae Proteins; D014157:Transcription Factors