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Lack of correct data format and comparability limits future integrative microarray research

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Figure 1: Evolution of raw data submission to GEO.


  1. Timmons, J.A. et al. FASEB J. 19, 750–760 (2005).

    Article  CAS  Google Scholar 

  2. Choi, J.K., Yu, U., Kim, S. & Yoo, O.J. Bioinformatics 19 Suppl 1, i84–90 (2003).

    Article  Google Scholar 

  3. Wennmalm, K., Wahlestedt, C. & Larsson, O. Genome Biol. 6, R109 (2005).

    Article  Google Scholar 

  4. Zhou, X.J. et al. Nat. Biotechnol. 23, 238–243 (2005).

    Article  CAS  Google Scholar 

  5. Dai, M. et al. Nucleic Acids Res. 33, e175 (2005).

    Article  Google Scholar 

  6. Irizarry, R.A. et al. Biostatistics 4, 242–264 (2003).

    Article  Google Scholar 

  7. Marshall, E. Science 306, 630–631 (2004).

    Article  CAS  Google Scholar 

  8. Shi, L. et al. BMC Bioinformatics 6 Suppl 2, S12 (2005).

    Article  Google Scholar 

  9. Irizarry, R.A. et al. Nat. Methods 2, 345–350 (2005).

    Article  CAS  Google Scholar 

  10. Shi, L. et al. Nat. Biotechnol. 24, 1151–1161 (2006).

    Article  CAS  Google Scholar 

  11. Brazma, A. et al. Nat. Genet. 29, 365–371 (2001).

    Article  CAS  Google Scholar 

  12. Barrett, T. et al. Nucleic Acids Res. 33, D562–D566 (2005).

    Article  CAS  Google Scholar 

  13. Parkinson, H. et al. Nucleic Acids Res. 33 Database Issue, D553–D555 (2005).

    Article  CAS  Google Scholar 

  14. Ball, C.A. et al. Science 298, 539 (2002).

    Article  CAS  Google Scholar 

  15. Wilson, C.L. & Miller, C.J. Bioinformatics 21, 3683–3685 (2005).

    Article  CAS  Google Scholar 

  16. Sandberg, R. & Ernberg, I. Proc. Natl. Acad. Sci. USA 102, 2052–2057 (2005).

    Article  CAS  Google Scholar 

Download references


This work was carried out in part using computing resources at the University of Minnesota Supercomputing Institute. O.L. is supported by a postdoctoral fellowship from the Swedish Research Council and R.S. is supported by a postdoctoral fellowship from the Knut and Alice Wallenberg Foundation.

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Supplementary Fig. 1

Analysis of raw data quality in GEO and ArrayExpress. (PDF 189 kb)

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Larsson, O., Sandberg, R. Lack of correct data format and comparability limits future integrative microarray research. Nat Biotechnol 24, 1322–1323 (2006).

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