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
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Chitin synthesis and fungal pathogenesis
TL;DR: This review summarises latest advances in the analysis of chitin synthesis regulation in the context of fungal pathogenesis and describes how this plays a role in the activation and attenuation of immune responses to fungi and other chitIn-containing parasites.
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The septin cortex at the yeast mother-bud neck.
TL;DR: Recent findings suggest that this domain serves as a diffusion barrier and also as a local cell-shape sensor and what is known about the organization of the septin cortex and its regulation during the cell cycle is reviewed.
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Transitive functional annotation by shortest-path analysis of gene expression data
TL;DR: Based on large-scale yeast microarray expression data, the shortest-path analysis is used to identify transitive genes between two given genes from the same biological process and it is found that not only functionally related genes with correlated expression profiles are identified but also those without.
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Discovering molecular pathways from protein interaction and gene expression data.
TL;DR: The approach is based on a unified probabilistic model, which is learned from the data using the EM algorithm, and shows that it is much more successful than other approaches at discovering both coherent functional groups and entire protein complexes.
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Stress-induced co-expression of alternative respiratory chain components in Arabidopsis thaliana
Rachel Clifton,Ryan Lister,Karen L. Parker,Pia G. Sappl,Dina Elhafez,A. Harvey Millar,David A. Day,James Whelan +7 more
TL;DR: A series of treatment sets were identified, representing the response of specific AOX and NDH genes to mitochondrial inhibition, plastid inhibition and abiotic stresses, which emphasise the multiplicity of pathways affecting alternative electron transport components in plants.
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: Unlike other quantitative PCR methods, real-time PCR does not require post-PCR sample handling, preventing potential PCR product carry-over contamination and resulting in much faster and higher throughput assays.
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Exploring the Metabolic and Genetic Control of Gene Expression on a Genomic Scale
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.
Book ChapterDOI
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.