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Journal ArticleDOI

Exploring the Metabolic and Genetic Control of Gene Expression on a Genomic Scale

Joseph L. DeRisi, +2 more
- 24 Oct 1997 - 
- Vol. 278, Iss: 5338, pp 680-686
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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.

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A new Voronoi-based surface reconstruction algorithm

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Genomic analysis of regulatory network dynamics reveals large topological changes

TL;DR: The dynamics of a biological network on a genomic scale is presented, by integrating transcriptional regulatory information and gene-expression data for multiple conditions in Saccharomyces cerevisiae, using an approach for the statistical analysis of network dynamics, called SANDY, combining well-known global topological measures, local motifs and newly derived statistics.
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GenMAPP, a new tool for viewing and analyzing microarray data on biological pathways.

TL;DR: A free stand-alone computer program designed for viewing and analyzing gene expression data in the context of biological pathways, GenMAPP (Gene Microarray Pathway Profiler), which complements the current pathway databases by providing a means of freely exchanging pathway-related data among investigators.
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.

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

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.
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