Handbook of proteomic methods / edited by P. Michael Conn.

Format:

Book

Contributor:

Conn, P. Michael.

Language:

English

Subjects (All):

Proteomics--Handbooks, manuals, etc.

Proteomics.

Medical Subjects:

Proteomics.

Genre:

Handbooks and manuals.

Physical Description:

xiv, 510 pages : illustrations ; 26 cm

Other Title:

Proteomic methods

Place of Publication:

Totowa, NJ : Humana Press, [2003]

Summary:

The developing new field of proteomics holds significant promise for a deeper understanding of complicated biological systems, as well as for novel approaches to the cure of disease. In the Handbook of Proteomic Methods, P. Michael Conn has assembled a panel of well-recognized experts to describe a wide range of powerful techniques for identifying and analyzing the diversity of proteins expressed in cells. These readily reproducible proteomic methods range from general to specific techniques, and include methods for data analysis, posttranslational modification, and its variants and isoforms. Additional methods demonstrate the application of proteomics to the discovery of serological tumor markers, to identifying the determinants of sensitivity to antitumor drugs, and to specialized fields, such as endocrinology, plant biology, nephrology, and urology. Each fully tested protocol is described in step-by-step detail, complete with tricks of the trade and hints on avoiding pitfalls. The detail of description exceeds that usually found in primary publications. Wide-ranging and practical, the Handbook of Proteomic Methods offers scientists entering, or already active in, the field a fully referenced compendium of easy-to-use proteomic methods -- each reflecting the power and promise of proteomics in illuminating complex biological systems and in promoting the development of novel drugs for the amelioration of disease.

Contents:

Part I General Techniques

1 Proteomics and the Molecular Biologist / Paul R. Graves, Timothy A. J. Haystead 3

2 Protein Identification from 2-D Gels Using In Vitro Transcription Translation Products / Nathalie Norais, Renzo Nogarotto, Emilia Tiziana Iacobini, Ignazio Garaguso, Renata Grifantini, Giuliano Galli, Guido Grandi 17

3 Selective Chemical Cleavage Methods in Proteomics, Including C-Terminal Successive Degradation / Akira Tsugita 29

4 Means of Hydrolyzing Proteins Isolated upon ProteinChip Array Surfaces: Chemical and Enzymatic Approaches / Shanhua Lin, Ning Tang, Scot R. Weinberger 59

5 A Combined Radiolabeling and Silver Staining Technique for Improved Visualization and Localization of Proteins on Two-Dimensional Gels / Jules A. Westbrook, Michael J. Dunn 73

6 Qualitative and Quantitative Proteomic Analyses via Multidimensional Protein Identification Technology / Michael P. Washburn, David M. Schieltz 79

7 Di- and Tri-Chromatic Fluorescence Detection on Western Blots / Karen J. Martin, Wayne F. Patton 93

8 Multiplexed Proteomics: Fluorescence Detection of Protein Differences by Two-Dimensional Gel Electrophoresis and Computer-Based Differential Display / Birte Schulenberg, Wayne F. Patton 107

9 A Strategy for Characterizing Antibody/Antigen Interactions Using ProteinChip Arrays / Alexandra Huhalov, Daniel I. R. Spencer, Kerry A. Chester 117

10 Stable Isotope Labeling with Amino Acids as an Aid to Protein Identification in Peptide Mass Fingerprinting / Robert J. Beynon 129

11 The Use of [superscript 18]O Labeling as a Tool for Proteomic Applications / Ian I. Stewart, Ty Thomson, Daniel Figeys, Henry S. Duewel 145

12 Automated Nanoflow Liquid Chromatography/Tandem Mass Spectrometric Identification of Liver Mitochondrial Proteins / Bart Devreese, Frank Vanrobaeys, Elke Lecocq, Joel Smet, Rudy Van Coster, Jozef Van Beeumen 181

13 In Silico Proteomics: Predicting Interactions from Sequence / Joel R. Bock, David A. Gough 193

Part II Post-Translational Modifications, Variants, and Isoforms

14 Predicting Glycan Composition from Experimental Mass Using GlycoMod / Catherine A. Cooper, Elisabeth Gasteiger, Nicolle H. Packer 225

15 Querying GlycoSuiteDB / Catherine A. Cooper, Hiren J. Joshi, Mathew J. Harrison, Marc R. Wilkins, Nicolle H. Packer 233

16 New Tools for Quantitative Phosphoproteome Analysis / Li-Rong Yu, Van M. Hoang, Timothy D. Veenstra 241

17 Computer-Aided Strategies for Characterizing Protein Isoforms / Frederic Nikitin, Frederique Lisacek 259

18 Protein Variant Separations Using Cation Exchange Chromatography on Grafted, Polymeric Stationary Phases / Michael Weitzhandler, Dell Farnan, Nebojsa Avdalovic, Chris Pohl 269

Part III Specific Systems

19 Noninvasive Imaging of Protein-Protein Interactions in Living Animals / Gary D. Luker, Vijay Sharma, David Piwnica-Worms 283

20 Strategies in Clinical Proteomics / Eric T. Fung 299

21 Proteomic Profiling of the Cancer Microenvironment / Vladimir Knezevic, Michael R. Emmert-Buck 309

22 Identification of Determinants of Sensitivity to Antitumor Drugs / Paola Perego, Giovanni Luca Beretta, Laura Gatti 319

23 Application of Proteomics to the Discovery of Serological Tumor Markers / Terence C. W. Poon, Philip J. Johnson 331

24 Infectomic Analysis of Microbial Infections Using Proteomics / Sheng-He Huang, Ambrose Jong, James T. Summersgill 347

25 Toward a Complete Proteome of Bacillus subtilis: Cytosolic, Cell Wall-Associated, and Extracellular Proteins / Haike Antelmann, Jan Maarten van Dijl, Michael Hecker 357

26 Renal and Urinary Proteomics / Visith Thongboonkerd, Elias Klein, Jon B. Klein 375

27 Proteomics in Endocrinology / Jan W. A. Smit, Johannes A. Romijn 397

28 Proteomics in Plant Biology / Christina Mihr, Hans-Peter Braun 409

Part IV Data Analysis

29 Bioinformatics in Proteomics / Mauno Vihinen 419

30 Quantitative Characterization of Proteomics Maps by Matrix Invariants / Milan Randic 429

31 Complexity of Protein-Protein Interaction Networks, Complexes, and Pathways / Danail Bonchev 451

32 Patchwork Peptide Sequencing: Protein Identification by Accurate Mass-to-Sequence Conversion of High-Resolution Q-TOF Tandem Mass Spectrometry Data / Andreas Schlosser, Wolf D. Lehmann 463

33 Estimation of Bias in Proteome Research / Ralf Mrowka, Hanspeter Herzel 473

34 Scoring Functions for Mass Spectrometric Protein Identification / Robin Gras, Patricia Hernandez, Markus Muller, Ron D. Appel 477.

Notes:

Includes bibliographical references and index.

ISBN:

1588293408

OCLC:

51477963