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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Machine learning in bioinformatics
Pedro Larrañaga,Borja Calvo,Roberto Santana,Concha Bielza,Josu Galdiano,Iñaki Inza,Jose A. Lozano,Rubén Armañanzas,Guzmán Santafé,Aritz Pérez,Víctor Robles +10 more
TL;DR: Modelling methods, such as supervised classification, clustering and probabilistic graphical models for knowledge discovery, as well as deterministic and stochastic heuristics for optimization, are presented.
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Regulatory element detection using correlation with expression
TL;DR: In this article, a new computational method for discovering cis-regulatory elements that circumvents the need to cluster genes based on their expression profiles is presented, based on a model in which upstream motifs contribute additively to the log-expression level of a gene, and outputs statistically significant motifs.
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Sparse partial least squares regression for simultaneous dimension reduction and variable selection
Hyonho Chun,Suenduez Keles +1 more
TL;DR: This work provides an efficient implementation of sparse partial least squares regression and compares it with well‐known variable selection and dimension reduction approaches via simulation experiments and illustrates the practical utility in a joint analysis of gene expression and genomewide binding data.
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Cell Wall Assembly in Saccharomyces cerevisiae
Guillaume Lesage,Howard Bussey +1 more
TL;DR: An area where functional genomics offers new insights into the integration of cell wall growth and morphogenesis with a polarized secretory system that is under cell cycle and cell type program controls is reviewed.
Journal ArticleDOI
Precision and functional specificity in mRNA decay
TL;DR: No simple correlation between mRNA half-lives and ORF size, codon bias, ribosome density, or abundance is found, but the decay rates of mRNAs encoding groups of proteins that act together in stoichiometric complexes were generally closely matched.
References
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Journal ArticleDOI
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.
Journal ArticleDOI
Real time quantitative PCR.
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.
Journal ArticleDOI
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.