Chipping away at the chip bias: RNA degradation in microarray analysis (original) (raw)

Nature Genetics volume 35, pages 292–293 (2003)Cite this article

An Erratum to this article was published on 01 January 2004

To the editor:

If one RNA sample was intact and the other was degraded during isolation, up to three-quarters of the differential gene expression measured was due solely to differences in RNA integrity between two samples (Fig. 1d). Supplementary Figure 1 online shows changes in mRNA levels caused by alteration of RNA integrity. This effect was independent of the algorithm applied to raw data analysis (Supplementary Tables 2, 3 and 4 online).

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

Relevant articles

Open Access articles citing this article.

Access options

Subscribe to this journal

Receive 12 print issues and online access

$209.00 per year

only $17.42 per issue

Buy this article

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

Additional access options:

Figure 1: Quantification of RNA integrity and consequences of degradation for expression analysis.

References

  1. Berger, S.L. & Cooper, H.L. Proc. Natl. Acad. Sci. USA 72, 3873–3877 (1975).
    Article CAS Google Scholar
  2. Van de Goor, T.A. PharmaGenomics 3, 16–18 (2003).
    Google Scholar
  3. Rosenberg, H.F. & Dyer, K. Nucleic Acids Res. 24, 3507–3513 (1996).
    Article CAS Google Scholar
  4. Nadano, D. & Sato, T.A. J. Biol. Chem. 275, 13967–13973 (2000).
    Article CAS Google Scholar
  5. Grasl-Kraupp, B. et al. Hepatology 25, 906–912 (1997).
    Article CAS Google Scholar
  6. Brazma, A. et al. Nat. Genet. 29, 365–371 (2001).
    Article CAS Google Scholar
  7. Göttlicher, M. et al. EMBO J. 20, 6969–6978 (2001).
    Article Google Scholar

Download references

Acknowledgements

We thank H. Klump, S. M. Tanner and K. Becknell for their critical reading of the manuscript. This work is supported in part by a grant from the US National Cancer Institute.

Author information

Authors and Affiliations

  1. Division of Human Cancer Genetics, The Ohio State University, Columbus, 43210, Ohio, USA
    Herbert Auer, Sandya Lyianarachchi & David Newsom
  2. Department of Internal Medicine, The Ohio State University, Columbus, 43210, Ohio, USA
    Marko I Klisovic & uido Marcucci
  3. Division of Sensory Biophysics, The Ohio State University, Columbus, 43210, Ohio, USA
    Karl Kornacker

Authors

  1. Herbert Auer
    You can also search for this author inPubMed Google Scholar
  2. Sandya Lyianarachchi
    You can also search for this author inPubMed Google Scholar
  3. David Newsom
    You can also search for this author inPubMed Google Scholar
  4. Marko I Klisovic
    You can also search for this author inPubMed Google Scholar
  5. uido Marcucci
    You can also search for this author inPubMed Google Scholar
  6. Karl Kornacker
    You can also search for this author inPubMed Google Scholar

Corresponding author

Correspondence toHerbert Auer.

Supplementary information

Rights and permissions

About this article

Cite this article

Auer, H., Lyianarachchi, S., Newsom, D. et al. Chipping away at the chip bias: RNA degradation in microarray analysis.Nat Genet 35, 292–293 (2003). https://doi.org/10.1038/ng1203-292

Download citation

This article is cited by