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The Gene Expression Omnibus Database.

Emily Clough1, Tanya Barrett2

  • 1National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, 45 Center Drive, MSC 6510, Building 45, Room AS13B, Bethesda, MD, 20892-6510, USA.

Methods in Molecular Biology (Clifton, N.J.)
|March 24, 2016
PubMed
Summary
This summary is machine-generated.

The Gene Expression Omnibus (GEO) database archives and distributes functional genomics data. It provides tools for querying, downloading, and analyzing diverse high-throughput datasets, supporting scientific research worldwide.

Keywords:
Data miningDatabaseFunctional genomicsGene expressionHigh-throughput sequencingMicroarray

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Area of Science:

  • Bioinformatics
  • Genomics
  • Data Archiving

Background:

  • Established in 2000, the Gene Expression Omnibus (GEO) is a public repository for high-throughput functional genomics data.
  • GEO has expanded to include diverse data types beyond gene expression, such as epigenomics and protein-interaction studies.

Purpose of the Study:

  • To describe the Gene Expression Omnibus (GEO) database as a comprehensive resource for functional genomics data.
  • To outline the capabilities of GEO for data submission, access, and analysis.

Main Methods:

  • Archiving and freely distributing high-throughput functional genomics data.
  • Supporting community-derived reporting standards for raw data, processed data, and metadata.
  • Providing web-based tools for data querying, retrieval, visualization, and analysis.

Main Results:

  • GEO hosts tens of thousands of studies, offering a vast collection of functional genomics data.
  • The database provides integrated tools for users to locate, visualize, and analyze relevant datasets.
  • GEO facilitates access to diverse data types including gene expression, methylation, chromatin structure, and protein interactions.

Conclusions:

  • The Gene Expression Omnibus (GEO) is a vital international resource for functional genomics research.
  • GEO's comprehensive data collection and analysis tools empower researchers globally.
  • Adherence to reporting standards ensures data quality and usability for the scientific community.