Skip to main content

Thank you for visiting nature.com. You are using a browser version with limited support for CSS. To obtain the best experience, we recommend you use a more up to date browser (or turn off compatibility mode in Internet Explorer). In the meantime, to ensure continued support, we are displaying the site without styles and JavaScript.

  • Correspondence
  • Published:

Reannotation of array probes at NCBI's GEO database

Nature Methods volume 5, page 117 (2008)Cite this article

Access through your institution
Buy or subscribe

To the editor:

The Gene Expression Omnibus (GEO) database1 hosted by the National Center for Biotechnology Information (NCBI) is the largest public archive for microarray data. Many factors contribute to the value and reusability of archived microarray data, including accurate probe annotation. As outlined by others2,3,4, this issue presents particular challenges, primarily because microarrays are labeled using many different annotation conventions and because probe-to-gene assignments continually evolve.

This is a preview of subscription content, access via your institution

Relevant articles

Open Access articles citing this article.

Access options

Access through your institution

Buy this article

  • Purchase on SpringerLink
  • Instant access to full article PDF
Buy now

Prices may be subject to local taxes which are calculated during checkout

References

  1. Barrett, T. et al. Nucleic Acids Res. 35, D760–D765 (2007).

    Article  CAS  PubMed  Google Scholar 

  2. Noth, S. & Benecke, A. BMC Bioinformatics 6, 307 (2005).

    Article  PubMed  PubMed Central  Google Scholar 

  3. Perez-Iratxeta, C. & Andrade, M.A. BMC Bioinformatics 6, 183 (2005).

    Article  PubMed  PubMed Central  Google Scholar 

  4. Stalteri, M. & Harrison, A. Appl. Bioinformatics 5, 237–248 (2006).

    Article  CAS  PubMed  Google Scholar 

  5. Chen, R., Li, L. & Butte, A.J. Nat. Methods 4, 879 (2007).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

Download references

Author information

Authors and Affiliations

  1. National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, 45 Center Drive, Bethesda, 20892, Maryland, USA

    Tanya Barrett & Ron Edgar

Authors
  1. Tanya Barrett
    View author publications

    Search author on:PubMed Google Scholar

  2. Ron Edgar
    View author publications

    Search author on:PubMed Google Scholar

Corresponding author

Correspondence to Ron Edgar.

Supplementary information

Supplementary Text and Figures

Supplementary Figure 1, Supplementary Table 1, Supplementary Discussion (PDF 45 kb)

Rights and permissions

Reprints and permissions

About this article

Cite this article

Barrett, T., Edgar, R. Reannotation of array probes at NCBI's GEO database. Nat Methods 5, 117 (2008). https://doi.org/10.1038/nmeth0208-117b

Download citation

  • Issue date:

  • DOI: https://doi.org/10.1038/nmeth0208-117b

This article is cited by

Search

Advanced search

Quick links

Nature Briefing

Sign up for the Nature Briefing newsletter — what matters in science, free to your inbox daily.

Get the most important science stories of the day, free in your inbox. Sign up for Nature Briefing