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Wilhelm et al. reply

Nature volume 547, page E23 (2017)Cite this article

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Replying to N. Fortelny, C. M. Overall, P. Pavlidis & G. V. Cohen Freue Nature 547, doi:10.1038/nature22293 (2017)

In the accompanying Comment, Fortelny et al.1 present a re-analysis of a particular aspect of our draft human proteome2, notably our claim that “Having learned the protein/mRNA ratio for every protein and transcript, it now becomes possible to predict protein abundance in any given tissue with good accuracy from the measured mRNA abundance.” Their key criticism is that the correlation analysis used at the time “…greatly overestimates the accuracy of per-gene predictions,” and hence concluded that “…the current data do not support high accuracy when using mRNA alone.” While we agree with parts of the analysis, we do not agree with all of the conclusions.

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References

  1. Fortelny, N., Overall, C. M., Pavlidis, P. & Cohen Freue, G. V. Can we predict protein from mRNA levels? Nature 547, http://dx/doi.org/10.1038/nature23293 (2017)

  2. Wilhelm, M. et al. Mass-spectrometry-based draft of the human proteome. Nature 509, 582–587 (2014)

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  3. Uhlén, M. et al. Tissue-based map of the human proteome. Science 347, 1260419 (2015)

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Author notes

  1. Hannes Hahne

    Present address: OmicScouts GmbH, Lise-Meitner-Str. 30, 85354, Freising, Germany

  2. Harald Marx

    Present address: Department of Chemistry, University of Wisconsin, 4426 Biotech, 425 Henry Mall, Madison, Wisconsin, 53706, USA

  3. Simone Lemeer

    Present address: Utrecht University, Padualaan 8, 3584 CH, Utrecht, The Netherlands

Authors and Affiliations

  1. Chair of Proteomics and Bioanalytics, Technical University of Munich, Emil-Erlenmeyer Forum 5, Freising, 85354, Germany

    Mathias Wilhelm, Hannes Hahne, Harald Marx, Simone Lemeer & Bernhard Kuster

  2. European Molecular Biology Laboratory, Meyerhofstrasse 1, Heidelberg, 69117, Germany

    Mikhail Savitski

  3. Cellzome GmbH, Meyerhofstrasse 1, Heidelberg, 69117, Germany

    Marcus Bantscheff

Authors
  1. Mathias Wilhelm
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  2. Hannes Hahne
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  7. Bernhard Kuster
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Wilhelm, M., Hahne, H., Savitski, M. et al. Wilhelm et al. reply. Nature 547, E23 (2017). https://doi.org/10.1038/nature22294

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