title: Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization.
abstract: We sought to create a comprehensive catalog of yeast genes whose transcript levels vary periodically within the cell cycle. To this end, we used DNA microarrays and samples from yeast cultures synchronized by three independent methods: alpha factor arrest, elutriation, and arrest of a cdc15 temperature-sensitive mutant. Using periodicity and correlation algorithms, we identified 800 genes that meet an objective minimum criterion for cell cycle regulation. In separate experiments, designed to examine the effects of inducing either the G1 cyclin Cln3p or the B-type cyclin Clb2p, we found that the mRNA levels of more than half of these 800 genes respond to one or both of these cyclins. Furthermore, we analyzed our set of cell cycle-regulated genes for known and new promoter elements and show that several known elements (or variations thereof) contain information predictive of cell cycle regulation. A full description and complete data sets are available at http://cellcycle-www.stanford.edu
authors.affiliation: Department of Genetics, Stanford University Medical Center, Stanford, California 94306-5120, USA.
authors.forename: P T
authors.initials: PT
authors.lastname: Spellman
authors.forename: G
authors.initials: G
authors.lastname: Sherlock
authors.forename: M Q
authors.initials: MQ
authors.lastname: Zhang
authors.forename: V R
authors.initials: VR
authors.lastname: Iyer
authors.forename: K
authors.initials: K
authors.lastname: Anders
authors.forename: M B
authors.initials: MB
authors.lastname: Eisen
authors.forename: P O
authors.initials: PO
authors.lastname: Brown
authors.forename: D
authors.initials: D
authors.lastname: Botstein
authors.forename: B
authors.initials: B
authors.lastname: Futcher
mesh_terms: D001483:Base Sequence; D001665:Binding Sites / Q000235:genetics; D002453:Cell Cycle / Q000235:genetics*; D019926:Cyclin B; D016213:Cyclins / Q000235:genetics; D017931:DNA Primers / Q000235:genetics; D004260:DNA Repair / Q000235:genetics; D004261:DNA Replication / Q000235:genetics; D004271:DNA, Fungal / Q000235:genetics / Q000378:metabolism; D005656:Fungal Proteins / Q000235:genetics; D015966:Gene Expression Regulation, Fungal; D005800:Genes, Fungal; D005810:Multigene Family; D009693:Nucleic Acid Hybridization / Q000379:methods*; D012331:RNA, Fungal / Q000235:genetics / Q000378:metabolism; D012333:RNA, Messenger / Q000235:genetics / Q000378:metabolism; D012441:Saccharomyces cerevisiae / Q000166:cytology* / Q000235:genetics* / Q000378:metabolism; D029701:Saccharomyces cerevisiae Proteins; D014158:Transcription, Genetic
chemical_list: C093749:CLB2 protein, S cerevisiae; C079895:CLN3 protein, S cerevisiae; D019926:Cyclin B; D016213:Cyclins; D017931:DNA Primers; D004271:DNA, Fungal; D005656:Fungal Proteins; D012331:RNA, Fungal; D012333:RNA, Messenger; D029701:Saccharomyces cerevisiae Proteins