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Vol. 9, Issue 12, 3273-3297, December 1998

Comprehensive Identification of Cell Cycle-regulated Genes of the Yeast Saccharomyces cerevisiae by Microarray Hybridization

Paul T. Spellman,*dagger Gavin Sherlock,*dagger Dagger Michael Q. Zhang,Dagger Vishwanath R. Iyer,§ Kirk Anders,* Michael B. Eisen,* Patrick O. Brown,§parallel David Botstein,* and Bruce FutcherDagger

 *Department of Genetics, Stanford University Medical Center, Stanford, California 94306-5120;  Dagger Cold Spring Harbor Laboratory, Cold Spring Harbor, New York 11724-2209;  §Department of Biochemistry, Stanford University Medical Center, Stanford, California 94306-5428; and  parallel Howard Hughes Medical Institute, Stanford, California 94305-5428

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


   A complete data set for this article is available at www.molbiolcell.org.
dagger    These authors contributed equally to this work.
   Corresponding author.


Molecular Biology of the Cell
Vol. 9, 3273-3297, December 1998
Copyright © 1998 by The American Society for Cell Biology



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