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Efficient Quantitative Comparisons of Plasma Proteomes Using Label-Free Analysis with MaxQuant

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Book cover Serum/Plasma Proteomics

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1619))

Abstract

Mass spectrometry (MS)-based quantitation of plasma proteomes is challenging due to the extremely wide dynamic range and molecular heterogeneity of plasma samples. However, recent advances in technology, MS instrumentation, and bioinformatics have enabled in-depth quantitative analyses of very complex proteomes, including plasma. Specifically, recent improvements in both label-based and label-free quantitation strategies have allowed highly accurate quantitative comparisons of expansive proteome datasets. Here we present a method for in-depth label-free analysis of human plasma samples using MaxQuant.

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Acknowledgments

This work was supported by NIH Grants RO1HD076279, RO1CA131582, and WW Smith Charitable Trust Grants H1205 and H1305 (D.W. Speicher), PA Department of Health Commonwealth Universal Research Enhancement (CURE) Program Grant (B. Ky), as well as CA10815 (NCI core grant to the Wistar Institute).

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Authors and Affiliations

  1. The Wistar Institute, 3601 Spruce Street, Philadelphia, PA, 19104, USA

    Lynn A. Beer, Pengyuan Liu & David W. Speicher

  2. Division of Cardiovascular Medicine, University of Pennsylvania, Philadelphia, PA, USA

    Bonnie Ky

  3. Department of Obstetrics and Gynecology, University of Pennsylvania, Philadelphia, PA, USA

    Kurt T. Barnhart

Authors
  1. Lynn A. Beer
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  2. Pengyuan Liu
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  3. Bonnie Ky
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  4. Kurt T. Barnhart
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  5. David W. Speicher
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Corresponding author

Correspondence to David W. Speicher .

Editor information

Editors and Affiliations

  1. Department of Biochemistry and Genetics, La Trobe Institute for Molecular Science, La Trobe University, Melbourne, Victoria, Australia

    David W. Greening

  2. Department of Biochemistry and Genetics, La Trobe Institute for Molecular Science, La Trobe University, Melbourne, Victoria, Australia

    Richard J. Simpson

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Beer, L.A., Liu, P., Ky, B., Barnhart, K.T., Speicher, D.W. (2017). Efficient Quantitative Comparisons of Plasma Proteomes Using Label-Free Analysis with MaxQuant. In: Greening, D., Simpson, R. (eds) Serum/Plasma Proteomics. Methods in Molecular Biology, vol 1619. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-7057-5_23

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  • DOI: https://doi.org/10.1007/978-1-4939-7057-5_23

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-7056-8

  • Online ISBN: 978-1-4939-7057-5

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