Journal ArticleDOI
Exploring the Metabolic and Genetic Control of Gene Expression on a Genomic Scale
Reads0
Chats0
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
More filters
Journal ArticleDOI
VirtualPlant: A software platform to support Systems Biology research
Manpreet S. Katari,Steve D. Nowicki,Felipe Eduardo Aceituno Aceituno,Damion C. Nero,Jonathan Kelfer,Lee Parnell Thompson,Juan M. Cabello,Rebecca S. Davidson,Arthur P. Goldberg,Dennis Shasha,Gloria M. Coruzzi,Rodrigo A. Gutiérrez,Rodrigo A. Gutiérrez +12 more
TL;DR: The VirtualPlant software platform helps biologists who are not trained in computer science to mine lists of genes, microarray experiments, and gene networks to address questions in plant biology, such as: What are the molecular mechanisms by which internal or external perturbations affect processes controlling growth and development?
Journal ArticleDOI
Metabolism of chemical carcinogens
TL;DR: The transformation of chemicals is important in carcinogenesis, both in bioactivation and detoxification as mentioned in this paper, and major advances in the past 20 years include appreciation of the migration of reactive electrophiles, the ability of Phase II conjugating enzymes to activate chemicals, understanding of the human enzymes, and the realization that DNA modification can result from endogenous chemicals.
Journal ArticleDOI
Assembly of mitochondrial cytochrome c-oxidase, a complicated and highly regulated cellular process
TL;DR: The present knowledge about the different regulatory checkpoints in COX assembly and the dynamic relationships between the different factors involved in the process are described and analyzed.
Journal ArticleDOI
Large-scale statistical analyses of rice ESTs reveal correlated patterns of gene expression.
Rob M. Ewing,Alia Ben Kahla,Olivier Poirot,Fabrice Lopez,Stéphane Audic,Jean-Michel Claverie +5 more
TL;DR: It is shown that computer analyses of plant EST data can be used to generate evidence of correlated expression patterns of genes across various tissues, and tissue types and organs can be classified with respect to one another on the basis of their global gene expression patterns.
Journal ArticleDOI
Complex transcriptional modulation with orthogonal and inducible dCas9 regulators
TL;DR: This work provides a robust CRISPR–dCas9-based platform for enacting complex transcription programs that is suitable for large-scale transcriptome engineering and devised AND, OR, NAND, and NOR dCas9 logic operators and a diametric regulator that activates gene expression with one inducer and represses with another.
References
More filters
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.