Chapter 3. HUPO Plasma Proteome Project specimen collection and handling: Towards the standardization of parameters for plasma proteome samples

  1. Prof. Dr. Gilbert S. Omenn
  1. Dr. Alex J. Rai Assistant Professor and Director of General Chemistry1,
  2. Craig A. Gelfand,
  3. Bruce C. Haywood,
  4. David J. Warunek,
  5. Jizu Yi,
  6. Mark D. Schuchard,
  7. Richard J. Mehigh,
  8. Steven L. Cockrill,
  9. Graham B. I. Scott,
  10. Harald Tammen,
  11. Peter Schulz-Knappe,
  12. Dr. David W. Speicher2,
  13. Frank Vitzthum,
  14. Brian B. Haab Ph.D.3,
  15. Gerard Siest and
  16. Daniel W. Chan

Published Online: 2 NOV 2006

DOI: 10.1002/9783527609482.ch3

Exploring the Human Plasma Proteome

Exploring the Human Plasma Proteome

How to Cite

Rai, A. J., Gelfand, C. A., Haywood, B. C., Warunek, D. J., Yi, J., Schuchard, M. D., Mehigh, R. J., Cockrill, S. L., Scott, G. B. I., Tammen, H., Schulz-Knappe, P., Speicher, D. W., Vitzthum, F., Haab, B. B., Siest, G. and Chan, D. W. (2006) HUPO Plasma Proteome Project specimen collection and handling: Towards the standardization of parameters for plasma proteome samples, in Exploring the Human Plasma Proteome (ed G. S. Omenn), Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim, Germany. doi: 10.1002/9783527609482.ch3

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 Johns Hopkins University School of Medicine, Department of Pathology, Division of Clinical Chemistry, 600 N. Wolfe St., Meyer B-121, Baltimore, MD 21287-7065, USA

  2. 2

    The Wistar Institute, 3601 Spruce St., Rm. 151, Philadelphia, PA 19104, USA

  3. 3

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

  1. Originally published in Proteomics 2005, 13, 3262-3277

Publication History

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

ISBN Information

Print ISBN: 9783527317578

Online ISBN: 9783527609482

SEARCH

Keywords:

  • human plasma proteome;
  • HUPO plasma proteome project specimen collection;
  • handling;
  • standardization of parameters for plasma proteome samples;
  • Materials and methods;
  • HUPO reference sample collection protocol

Summary

This chapter contains sections titled:

  • Introduction

  • Materials and methods

    • HUPO reference sample collection protocol

    • Differential peptide display

    • Stability studies and SELDI analysis

    • SDS-PAGE analysis for stability studies

    • 2-DE for stability studies

    • SELDI-TOF analysis for protease inhibitor studies

    • 2-DE for plasma protease inhibition studies

    • Tryptic digestion and protein identification for protease inhibition studies

    • Antibody microarray analysis using two-color rolling circle amplification

  • Results

    • Comparisons of specimen types

      • Analysis of serum

      • Analysis of plasma

    • Evaluation of storage and handling conditions

    • Evaluations of the use of protease inhibitors

      • Analysis with SELDI-TOF MS of “time zero” effects of protease inhibitors in plasma

      • Analysis by 2-DE

      • Analysis with antibody arrays

  • Discussion

    • Other pre-analytical variables and control considerations

    • Reference materials

  • Concluding remarks

  • References