Data management and analysis for gene expression arrays

Olga Ermolaeva; Mohit Rastogi; Kim D. Pruitt; Gregory D. Schuler; Michael L. Bittner; Yidong Chen; Richard Simon; Paul Meltzer; Jeffrey M. Trent; Mark S. Boguski

doi:10.1038/1670

Data management and analysis for gene expression arrays

Olga Ermolaeva, Mohit Rastogi, Kim D. Pruitt, Gregory D. Schuler, Michael L. Bittner, Yidong Chen, Richard Simon, Paul Meltzer, Jeffrey M. Trent, Mark S. Boguski

School of Medicine

Research output: Contribution to journal › Review article › peer-review

248 Scopus citations

Abstract

Microarray technology makes it possible to simultaneously study the expression of thousands of genes during a single experiment. We have developed an information system, ArrayDB, to manage and analyse large-scale expression data. The underlying relational database was designed to allow flexibility in the nature and structure of data input and also in the generation of standard or customized reports through a web-browser interface. ArrayDB provides varied options for data retrieval and analysis tools that should facilitate the interpretation of complex hybridization results. A sampling of ArrayDB storage, retrieval and analysis capabilities is available (www.nhgri.nih.gov/DIR/LCG/15K/HTML/), along with information on a set of approximately 15,000 genes used to fabricate several widely used microarrays. Information stored in ArrayDB is used to provide integrated gene expression reports by linking array target sequences with NCBI's Entrez retrieval system, UniGene and KEGG pathway views. The integration of external information resources is essential in interpreting intrinsic patterns and relationships in large-scale gene expression data.

Original language	English (US)
Pages (from-to)	19-23
Number of pages	5
Journal	Nature genetics
Volume	20
Issue number	1
DOIs	https://doi.org/10.1038/1670
State	Published - 1998

ASJC Scopus subject areas

Genetics

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10.1038/1670

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title = "Data management and analysis for gene expression arrays",

abstract = "Microarray technology makes it possible to simultaneously study the expression of thousands of genes during a single experiment. We have developed an information system, ArrayDB, to manage and analyse large-scale expression data. The underlying relational database was designed to allow flexibility in the nature and structure of data input and also in the generation of standard or customized reports through a web-browser interface. ArrayDB provides varied options for data retrieval and analysis tools that should facilitate the interpretation of complex hybridization results. A sampling of ArrayDB storage, retrieval and analysis capabilities is available (www.nhgri.nih.gov/DIR/LCG/15K/HTML/), along with information on a set of approximately 15,000 genes used to fabricate several widely used microarrays. Information stored in ArrayDB is used to provide integrated gene expression reports by linking array target sequences with NCBI's Entrez retrieval system, UniGene and KEGG pathway views. The integration of external information resources is essential in interpreting intrinsic patterns and relationships in large-scale gene expression data.",

author = "Olga Ermolaeva and Mohit Rastogi and Pruitt, {Kim D.} and Schuler, {Gregory D.} and Bittner, {Michael L.} and Yidong Chen and Richard Simon and Paul Meltzer and Trent, {Jeffrey M.} and Boguski, {Mark S.}",

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doi = "10.1038/1670",

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AU - Ermolaeva, Olga

AU - Rastogi, Mohit

AU - Pruitt, Kim D.

AU - Schuler, Gregory D.

AU - Bittner, Michael L.

AU - Chen, Yidong

AU - Simon, Richard

AU - Meltzer, Paul

AU - Trent, Jeffrey M.

AU - Boguski, Mark S.

PY - 1998

Y1 - 1998

N2 - Microarray technology makes it possible to simultaneously study the expression of thousands of genes during a single experiment. We have developed an information system, ArrayDB, to manage and analyse large-scale expression data. The underlying relational database was designed to allow flexibility in the nature and structure of data input and also in the generation of standard or customized reports through a web-browser interface. ArrayDB provides varied options for data retrieval and analysis tools that should facilitate the interpretation of complex hybridization results. A sampling of ArrayDB storage, retrieval and analysis capabilities is available (www.nhgri.nih.gov/DIR/LCG/15K/HTML/), along with information on a set of approximately 15,000 genes used to fabricate several widely used microarrays. Information stored in ArrayDB is used to provide integrated gene expression reports by linking array target sequences with NCBI's Entrez retrieval system, UniGene and KEGG pathway views. The integration of external information resources is essential in interpreting intrinsic patterns and relationships in large-scale gene expression data.

AB - Microarray technology makes it possible to simultaneously study the expression of thousands of genes during a single experiment. We have developed an information system, ArrayDB, to manage and analyse large-scale expression data. The underlying relational database was designed to allow flexibility in the nature and structure of data input and also in the generation of standard or customized reports through a web-browser interface. ArrayDB provides varied options for data retrieval and analysis tools that should facilitate the interpretation of complex hybridization results. A sampling of ArrayDB storage, retrieval and analysis capabilities is available (www.nhgri.nih.gov/DIR/LCG/15K/HTML/), along with information on a set of approximately 15,000 genes used to fabricate several widely used microarrays. Information stored in ArrayDB is used to provide integrated gene expression reports by linking array target sequences with NCBI's Entrez retrieval system, UniGene and KEGG pathway views. The integration of external information resources is essential in interpreting intrinsic patterns and relationships in large-scale gene expression data.

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Data management and analysis for gene expression arrays

Abstract

ASJC Scopus subject areas

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