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Related Experiment Videos

ArrayExpress--a public repository for microarray gene expression data at the EBI.

H Parkinson1, U Sarkans, M Shojatalab

  • 1European Bioinformatics Institute, EMBL-EBI Wellcome Trust Genome Campus, Hinxton CB10 1SD, UK. parkinson@ebi.ac.uk

Nucleic Acids Research
|December 21, 2004
PubMed
Summary

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This summary is machine-generated.

ArrayExpress is a public repository for microarray data, supporting Minimum Information About a Microarray Experiment (MIAME) standards. It offers curated, searchable, and analyzable gene expression data from diverse species.

Area of Science:

  • Bioinformatics
  • Genomics
  • Data Science

Background:

  • Microarray experiments generate large datasets requiring standardized storage and retrieval.
  • The Minimum Information About a Microarray Experiment (MIAME) guidelines ensure data quality and reproducibility.
  • Public repositories are crucial for sharing and accessing gene expression data.

Purpose of the Study:

  • To describe the ArrayExpress database, a public repository for microarray data.
  • To highlight its features for data submission, access, and analysis.
  • To promote the use of ArrayExpress for gene expression research.

Main Methods:

  • Data submission via online forms or direct import from local databases/LIMS.
  • Standardized data formatting and annotation adhering to MIAME requirements.

Related Experiment Videos

  • Password-protected access for pre-publication data review.

    • Main Results:

    • As of November 2004, ArrayExpress housed data from ~12,000 hybridizations across 35 species.
    • Data is searchable by accession number, species, author, and array platform.
    • A data warehouse enables querying by gene and sample properties for curated data.

    Conclusions:

    • ArrayExpress provides a valuable resource for accessing and analyzing curated microarray data.
    • Integrated tools like Expression Profiler facilitate data visualization and analysis.
    • The repository supports MIAME standards, enhancing data sharing and research reproducibility.