Chapter 4. Immunoassay and antibody microarray analysis of the HUPO Plasma Proteome Project reference specimens: Systematic variation between sample types and calibration of mass spectrometry data

  1. Prof. Dr. Gilbert S. Omenn
  1. Brian B. Haab Ph.D.1,
  2. Bernhard H. Geierstanger,
  3. George Michailidis,
  4. Frank Vitzthum,
  5. Sara Forrester,
  6. Ryan Okon,
  7. Petri Saviranta,
  8. Achim Brinker,
  9. Martin Sorette,
  10. Lorah Perlee,
  11. Shubha Suresh,
  12. Garry Drwal,
  13. Joshua N. Adkins and
  14. Gilbert S. Omenn2

Published Online: 2 NOV 2006

DOI: 10.1002/9783527609482.ch4

Exploring the Human Plasma Proteome

Exploring the Human Plasma Proteome

How to Cite

Haab, B. B., Geierstanger, B. H., Michailidis, G., Vitzthum, F., Forrester, S., Okon, R., Saviranta, P., Brinker, A., Sorette, M., Perlee, L., Suresh, S., Drwal, G., Adkins, J. N. and Omenn, G. S. (2006) Immunoassay and antibody microarray analysis of the HUPO Plasma Proteome Project reference specimens: Systematic variation between sample types and calibration of mass spectrometry data, in Exploring the Human Plasma Proteome (ed G. S. Omenn), Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim, Germany. doi: 10.1002/9783527609482.ch4

Editor Information

  1. Internal Medicine, University of Michigan, A520 MSRB 1 Bldg, 1150 West Medical Center Dr. Ann Arbor, MI 48109–0626, USA

Author Information

  1. 1

    The Van Andel Research Institute, 333 Bostwick NE, Grand Rapids, MI 49503, USA

  2. 2

    Internal Medicine, University of Michigan, A520 MSRB 1 Bldg, 1150 West Medical Center Dr. Ann Arbor, MI 48109–0626, USA

  1. Originally published in Proteomics 2005, 13, 3278–3291

Publication History

  1. Published Online: 2 NOV 2006
  2. Published Print: 6 OCT 2006

ISBN Information

Print ISBN: 9783527317578

Online ISBN: 9783527609482

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Keywords:

  • human plasma proteome;
  • immunoassay;
  • antibody microarray analysis of the HUPO plasma proteome project reference specimens;
  • sample types;
  • calibration of mass spectrometry data;
  • materials and methods;
  • reference specimens;
  • antibody-based measurements;
  • HUPO reference specimens

Summary

This chapter contains sections titled:

  • Introduction

  • Materials and methods

    • Reference specimens

    • DB immunoassays

    • Antibody arrays at GNF

      • Antibodies, reagents, microarray printing, and platform

      • Microarray layout and processing

      • Array imaging and data analysis

    • Antibody microarrays at MSI

      • Chip manufacture

      • Rolling circle amplification (RCA) immunoassay

      • Conversion of mean fluorescent intensity to concentration

    • Antibody microarrays at VARI

      • Fabrication of antibody microarrays

      • Serum labeling

      • Processing of antibody microarrays

      • Analysis

    • Retrieval and matching of IPI numbers for the analytes

  • Results

    • Antibody-based measurements of the HUPO reference specimens

    • Systematic variation between the preparation methods of the PPP reference specimens

    • Consistent alterations in specific protein abundances

    • Linkage of MS data and antibody-based measurements

  • Discussion

  • References