Elsevier S & T

Proteome Characterization and Proteomics

Veenstra, Timothy D.; Smith, Richard D.

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Table of contents
  • Contentsv
  • Chapter 1. Proteomics in the Postgenomic Age1
  • I. Introduction1
  • II. Deciphering the Genome3
  • III. Gene Expression Profiles3
  • IV. A Niche for Proteomics6
  • V. The Proteome: Greater than the Sum of its Parts8
  • VI. Biological and Clinical Applications15
  • VII. Proteomics Meets Cell Biology16
  • VIII. Summary18
  • References18
  • Chapter 2. The Tools of Proteomics25
  • I. Introduction25
  • II. Ionization Methods27
  • III. Mass Analyzers35
  • IV. Sample Fractionation43
  • V. Software Tools46
  • VI. Conclusions51
  • References51
  • Chapter 3. Proteomic Analysis by Two-Dimensional Polyacrylamide Gel Electrophoresis57
  • I. Introduction57
  • II. Historical Development of 2D-PAGE59
  • III. Limitations and Advances62
  • IV. Protein Visualization Methods65
  • V. Proteome Application of 2D-PAGE73
  • VI. The Future81
  • References81
  • Chapter 4. High-Performance Separations and Mass Spectrometric Methods for High-Throughput Proteomic85
  • I. Introduction85
  • II. Proteome Measurement Technology and Applications87
  • III. Technology Advances for Expanding Proteome Coverage114
  • References127
  • Chapter 5. Current Strategies for Quantitative Proteomics133
  • I. Introduction133
  • II. Quantitative Two-Dimensional Polyacrylamide Gel Electrophoresis136
  • III. Metabolic Labeling Applications for Quantitative Proteomics141
  • IV. Chemical Modification Strategies for Quantitative Proteome Measurements148
  • V. Conclusions156
  • References157
  • Chapter 6. Proteome Analysis of Posttranslational Modifications161
  • I. Introduction161
  • II. Phosphorylation163
  • III. Mass Spectral Identification of Phosphopeptides175
  • IV. Glycosylation181
  • V. Conclusions190
  • References191
  • Chapter 7. Mapping Protein Modifications with Liquid Chromatography-Mass Spectrometry and the SALSA195
  • I. Introduction195
  • II. MS-MS Fragmentation of Modified Peptides196
  • III. SALSA: A Pattern Recognition Algorithm to Identify MS-MS Spectra for Modified Peptides200
  • IV. Mapping Protein Modifications with SALSA205
  • V. Comparison of SALSA with Other Software for Analysis of MS-MS Data210
  • References212
  • Chapter 8. Emerging Role of Mass Spectrometry in Structural and Functional Proteomics217
  • I. Introduction217
  • II. Application of ESI-MS in Structural and Functional Proteomics223
  • III. Future Directions240
  • References242
  • Chapter 9. Application of Separation Technologies to Proteomics Research249
  • I. Introduction249
  • II. What Is Proteomics?250
  • III. What Needs to Be Separated?251
  • IV. Slab Gel Electophoresis, High-Performance Liquid Chromatography, or Capillary Electrophoresis?252
  • V. Multidimensional Separations of Proteins256
  • VI. On-Column HPLC and CE Protein Concentration263
  • VII. Detection264
  • VIII. Proteome Quantitation Strategies266
  • IX. Conclusion267
  • References268
  • Chapter 10. Proteomics of Membrane Proteins271
  • I. Introduction271
  • II. Techniques276
  • III. Applications: The Thylakoid Membrane Proteome293
  • IV. Conclusions303
  • References304
  • Chapter 11. Proteomics in Drug Discovery309
  • I. Introduction309
  • II. The Complexity of Proteomic Analysis in Drug Discovery311
  • III. Proteomic Strategies in Drug Discovery312
  • IV. Quantification in Proteomic Studies315
  • V. Applications319
  • VI. Functional Proteomics Approach320
  • VII. Future Trends in Proteomics329
  • References334
  • Chapter 12. From Clone to Crystal: Maximizing the Amount of Protein Samples for Structure Determinat343
  • I. Introduction343
  • II. Technology Drives the Process344
  • III. From Sequence to Solubility: The First Step346
  • IV. Alternative Expression Systems346
  • V. Screening for the Most Soluble Ortholog347
  • VI. Cofactor Screens347
  • VII. Solubility Screens348
  • VIII. From Solubility to Structure: The Second Step348
  • IX. Conclusions350
  • References350
  • Chapter 13. Proteomics and Bioinformatics353
  • I. Introduction353
  • II. Bioinformatics Tools355
  • III. Proteomics Tools358
  • IV. Database Integration365
  • V. Conclusions366
  • References367
  • AUTHOR INDEX371
  • SUBJECT INDEX403
  • Color Plate Section419
Book details
  • Vendor Elsevier S & T
  • SKU 9780120342655
  • ISBN-13 9780080569154
  • Author Veenstra, Timothy D.; Smith, Richard D.
  • Category Science
  • Subject Research & Methodology

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Description eBook delivery & access Reviews
The content of this volume is designed to reach a wide audience, including those involved with relevant technologies such as electrophoresis and mass spectrometry, to those interested in how proteomics can benefit research. A wide range of techniques are discussed, each specifically designed to address different needs in proteomic analysis. The concluding chapter discusses the important issue related to handling large amounts of data accumulated in proteomic studies.

Key Features
* Discusses proteomics in the postgenomic age
* Includes various strategies for quantitative proteomics
* Covers the role of MS in structural functional proteomics and proteomics in drug discovery and bioinformatics