Comprehensive Identification of Cell Cycle–regulated Genes of the Yeast Saccharomyces cerevisiae by Microarray Hybridization
Paul T. Spellman,Gavin Sherlock,Gavin Sherlock,Michael Q. Zhang,Vishwanath R. Iyer,Kirk R. Anders,Michael B. Eisen,Patrick O. Brown,Patrick O. Brown,David Botstein,Bruce Futcher +10 more
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TLDR
A comprehensive catalog of yeast genes whose transcript levels vary periodically within the cell cycle is created, and it is found that the mRNA levels of more than half of these 800 genes respond to one or both of these cyclins.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 sync...read more
Citations
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Microarray analysis of the transcriptional network controlled by the photoreceptor homeobox gene Crx.
Frederick J. Livesey,Frederick J. Livesey,T. Furukawa,T. Furukawa,Martin Steffen,George M. Church,Constance L. Cepko,Constance L. Cepko +7 more
TL;DR: This study demonstrates that cDNA microarrays can be successfully used to define the transcriptional networks controlled by transcription factors in vertebrate tissue in vivo.
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Chromatin remodeling enzymes: who's on first?
TL;DR: Recent developments concerning the role of chromatin remodeling enzymes in gene regulation are reviewed, and several models to explain how different chromatin renovation activities can be functionally coupled are proposed.
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Application of independent component analysis to microarrays
Su-In Lee,Serafim Batzoglou +1 more
TL;DR: ICA outperforms other leading methods, such as principal component analysis, k-means clustering and the Plaid model, in constructing functionally coherent clusters on microarray datasets from Saccharomyces cerevisiae, Caenorhabditis elegans and human.
Journal ArticleDOI
Identifying periodically expressed transcripts in microarray time series data
TL;DR: Two simple but efficient statistical methods for signal detection and gene selection in gene expression time series data are introduced and an exact statistical test to identify periodically expressed genes that allows one to distinguish periodic from purely random processes is described.
Journal ArticleDOI
Complex transcriptional circuitry at the G1/S transition in Saccharomyces cerevisiae
Christine E. Horak,Nicholas M. Luscombe,Jiang Qian,Paul Bertone,Stacy Piccirrillo,Mark Gerstein,Michael Snyder +6 more
TL;DR: The transcriptional circuitry that regulates the G1-to-S-phase progression, these factors were epitope-tagged and their binding targets were identified by chIp-chip analysis, indicating that a complex network of transcription factors coordinates the diverse activities that initiate a new cell cycle.
References
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Cluster analysis and display of genome-wide expression patterns
TL;DR: A system of cluster analysis for genome-wide expression data from DNA microarray hybridization is described that uses standard statistical algorithms to arrange genes according to similarity in pattern of gene expression, finding in the budding yeast Saccharomyces cerevisiae that clustering gene expression data groups together efficiently genes of known similar function.
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TL;DR: DNA microarrays containing virtually every gene of Saccharomyces cerevisiae were used to carry out a comprehensive investigation of the temporal program of gene expression accompanying the metabolic shift from fermentation to respiration, and the expression patterns of many previously uncharacterized genes provided clues to their possible functions.
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Getting started with yeast.
TL;DR: The yeast Saccharomyces cerevisiae is now recognized as a model system representing a simple eukaryote whose genome can be easily manipulated and made particularly accessible to gene cloning and genetic engineering techniques.
Journal ArticleDOI
A Genome-Wide Transcriptional Analysis of the Mitotic Cell Cycle
Raymond J. Cho,Michael J. Campbell,Elizabeth A. Winzeler,Lars M. Steinmetz,Andrew R. Conway,Lisa Wodicka,Tyra G. Wolfsberg,Andrei Gabrielian,David Landsman,David J. Lockhart,Ronald W. Davis +10 more
TL;DR: The genome-wide characterization of mRNA transcript levels during the cell cycle of the budding yeast S. cerevisiae indicates a mechanism for local chromosomal organization in global mRNA regulation and links a range of human genes to cell cycle period-specific biological functions.