The Proteomics Protocols Handbook

1. Front Matter

   Pages i-xviii

   PDF

2. Extraction and Solubilization of Proteins for Proteomic Studies

   • Richard M. Leimgruber

   Pages 1-18

3. Preparation of Bacterial Samples for 2-D PAGE

   • Brian Berg Vandahl, Gunna Christiansen, Svend Birkelund

   Pages 19-26

4. Preparation of Yeast Samples for 2-D PAGE

   • Joakim Norbeck

   Pages 27-30

5. Preparation of Mammalian Tissue Samples for Two-Dimensional Electrophoresis

   • Frank A. Witzmann

   Pages 31-35

6. Differential Detergent Fractionation of Eukaryotic Cells

   • Melinda L. Ramsby, Gregory S. Makowski

   Pages 37-48

7. Serum or Plasma Sample Preparation for Two-Dimensional Gel Electrophoresis

   • Anthony G. Sullivan, Stephen Russell, Henry Brzeski, Richard I. Somiari, Craig D. Shriver

   Pages 49-54

8. Preparation of Plant Protein Samples for 2-D PAGE

   • David W. M. Leung

   Pages 55-57

9. Laser-Assisted Microdissection in Proteomic Analyses

   • Darrell L. Ellsworth, Stephen Russell, Brenda Deyarmin, Anthony G. Sullivan, Henry Brzeski, Richard I. Somiari et al.

   Pages 59-66

10. Purification of Cellular and Organelle Populations by Fluorescence-Activated Cell Sorting for Proteome Analysis

    • William L. Godfrey, Colette J. Rudd, Sujata Iyer, Diether Recktenwald

    Pages 67-78

11. Purification of Nucleoli From Lymphoma Cells and Solubilization of Nucleolar Proteins for 2-DE Separation

    • Régis Dieckmann, Yohann Couté, Denis Hochstrasser, Jean-Jacques Diaz, Jean-Charles Sanchez

    Pages 79-85

12. Prefractionation of Complex Protein Mixture for 2-D PAGE Using Reversed-Phase Liquid Chromatography

    • Volker Badock, Albrecht Otto

    Pages 87-95

13. Fractionation of Complex Proteomes by Microscale Solution Isoelectrofocusing Using ZOOM− IEF Fractionators to Improve Protein Profiling

    • Xun Zuo, Ki-Boom Lee, David W. Speicher

    Pages 97-117

14. Large-Format 2-D Polyacrylamide Gel Electrophoresis

    • Henry Brzeski, Stephen Russell, Anthony G. Sullivan, Richard I. Somiari, Craig D. Shriver

    Pages 119-131

15. Analysis of Membrane Proteins by Two-Dimensional Gels

    • Michael Fountoulakis

    Pages 133-144

16. 2-D PAGE of High-Molecular-Mass Proteins

    • Masamichi Oh-Ishi, Tadakazu Maeda

    Pages 145-149

17. Using Ultra-Zoom Gels for High-Resolution Two-Dimensional Polyacrylamide Gel Electrophoresis

    • Sjouke Hoving, Hans Voshol, Jan van Oostrum

    Pages 151-165

18. NEpHGE and pI Strip Proteomic 2-D Gel Electrophoretic Mapping of Lipid-Rich Membranes

    • Steven E. Pfeiffer, Yoshihide Yamaguchi, Cecilia B. Marta, Rashmi Bansal, Christopher M. Taylor

    Pages 167-175

19. Silver Staining of 2-D Gels

    • Julia Poland, Thierry Rabilloud, Pranav Sinha

    Pages 177-184

20. Zn2+Reverse Staining Technique

    • Carlos Fernandez-Patron

    Pages 185-192

Hands-on researchers describe in step-by-step detail 73 proven laboratory methods and bioinformatics tools essential for analysis of the proteome. These cutting-edge techniques address such important tasks as sample preparation, 2D-PAGE, gel staining, mass spectrometry, and post-translational modification. There are also readily reproducible methods for protein expression profiling, identifying protein-protein interactions, and protein chip technology, as well as a range of newly developed methodologies for determining the structure and function of a protein. The bioinformatics tools include those for analyzing 2D-GEL patterns, protein modeling, and protein identification. All laboratory-based protocols follow the successful Methods in Molecular Biology™ series format, each offering step-by-step laboratory instructions, an introduction outlining the principle behind the technique, lists of the necessary equipment and reagents, and tips on troubleshooting and avoiding known pitfalls.



   

• Proteomics
• biology
• membrane proteins
• molecular biology
• phosphorylation
• protein
• translation

• University of Hertfordshire, Hatfield, UK

  John M. Walker

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