Journal ArticleDOI
Exploring the Metabolic and Genetic Control of Gene Expression on a Genomic Scale
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TLDR
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.Abstract:
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. The expression profiles observed for genes with known metabolic functions pointed to features of the metabolic reprogramming that occur during the diauxic shift, and the expression patterns of many previously uncharacterized genes provided clues to their possible functions. The same DNA microarrays were also used to identify genes whose expression was affected by deletion of the transcriptional co-repressor TUP1 or overexpression of the transcriptional activator YAP1. These results demonstrate the feasibility and utility of this approach to genomewide exploration of gene expression patterns.read more
Citations
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Journal ArticleDOI
Genome-wide analysis of mRNA translation profiles in Saccharomyces cerevisiae.
TL;DR: Global analysis revealed an unexpected correlation: Ribosome density decreases with increasing ORF length, consistent with initiation as the rate-limiting step in translation.
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Reverse engineering gene networks using singular value decomposition and robust regression
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Journal ArticleDOI
Gene expression profiles of laser-captured adjacent neuronal subtypes.
Lin Luo,Ranelle C. Salunga,Hongqing Guo,Anton Bittner,K.C. Joy,Jose E. Galindo,Huinian Xiao,Kathryn E. Rogers,Jackson S. Wan,Michael R. Jackson,Mark G. Erlander +10 more
TL;DR: Ian Tomlinson and Walter Bodmer point out that an increased mutation rate does not necessarily cause a tumor to grow and that selection is in fact the mechanism that drives the cellular, somatic evolution that leads to cancer.
Book ChapterDOI
Knowledge Discovery in Multi-label Phenotype Data
Amanda Clare,Ross D. King +1 more
TL;DR: This work uses KDD to analyse data from mutant phenotype growth experiments with the yeast S. cerevisiae to predict novel gene functions, and learns rules which are accurate and biologically meaningful.
Journal ArticleDOI
Regulation of the Mycobacterium tuberculosis hypoxic response gene encoding α-crystallin
David R. Sherman,Martin I. Voskuil,Dirk Schnappinger,Reiling Liao,Maria I. Harrell,Gary K. Schoolnik +5 more
TL;DR: The results suggest a possible role for Rv3132c/3133c/Rv3134c in mycobacterial latency, and an apparent operon that includes the putative two-component response regulator pair R v3133/3132/3134/3 134c is suggested.
References
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Journal ArticleDOI
Quantitative monitoring of gene expression patterns with a complementary DNA microarray.
TL;DR: A high-capacity system was developed to monitor the expression of many genes in parallel by means of simultaneous, two-color fluorescence hybridization, which enabled detection of rare transcripts in probe mixtures derived from 2 micrograms of total cellular messenger RNA.
PatentDOI
Expression monitoring by hybridization to high density oligonucleotide arrays
TL;DR: In this article, the authors proposed a method for monitoring the expression levels of a multiplicity of genes by hybridizing a nucleic acid sample to a high density array of oligonucleotide probes and quantifying the hybridized nucleic acids in the array.
Journal ArticleDOI
Use of a cDNA microarray to analyse gene expression patterns in human cancer.
Joseph L. DeRisi,Lolita Penland,Patrick O. Brown,M. L. Bittner,P. S. Meltzer,M. Ray,Yi Chen,Y. A. Su,J. M. Trent +8 more
TL;DR: Previously unrecognized alterations in the expression of specific genes provide leads for further investigation of the genetic basis of the tumorigenic phenotype of these cells.
Journal ArticleDOI
Accessing Genetic Information with High-Density DNA Arrays
Mark S. Chee,Robert Yang,Earl Hubbell,Anthony Berno,Xiaohua C. Huang,David Stern,Jim Winkler,David J. Lockhart,Macdonald S. Morris,Stephen P. A. Fodor +9 more
TL;DR: The simultaneous analysis of the entire human mitochondrial genome is described here and can be used to address a variety of questions in molecular genetics including gene expression, genetic linkage, and genetic variability.
Journal ArticleDOI
A DNA microarray system for analyzing complex DNA samples using two-color fluorescent probe hybridization.
TL;DR: This work describes a general experimental approach, using microscopic arrays of DNA fragments on glass substrates for differential hybridization analysis of fluorescently labeled DNA samples, and demonstrates the utility of DNA microarrays in the analysis of complex DNA samples.