Table of Contents
Part I. General Techniques
Proteomics and the Molecular Biologist
Paul R. Graves and Timothy A. J. Haystead
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, and Guido Grandi
Selective Chemical Cleavage Methods in Proteomics, Including C-Terminal Successive Degradation
Akira Tsugita
Means of Hydrolyzing Proteins Isolated upon ProteinChip® Array Surfaces: Chemical and Enzymatic Approaches
Shanhua Lin, Ning Tang, and Scot R. Weinberger
A Combined Radiolabeling and Silver Staining Technique for Improved Visualization and Localization of Proteins on Two-Dimensional Gels
Jules A. Westbrook and Michael J. Dunn
Qualitative and Quantitative Proteomic Analyses via Multidimensional Protein Identification Technology
Michael P. Washburn and David M. Schieltz
Di- and Tri-Chromatic Fluorescence Detection on Western Blots
Karen J. Martin and Wayne F. Patton
Multiplexed Proteomics: Fluorescence Detection of Protein Differences by Two-Dimensional Gel Electrophoresis and Computer-Based Differential Display
Birte Schulenberg and Wayne F. Patton
A Strategy for Characterizing Antibody/Antigen Interactions Using ProteinChip® Arrays
Alexandra Huhalov, Daniel I. R. Spencer, and Kerry A. Chester
Stable Isotope Labeling with Amino Acids as an Aid to Protein Identification in Peptide Mass Fingerprinting
Robert J. Beynon
The Use of 18O Labeling as a Tool for Proteomic Applications
Ian I. Stewart, Ty Thomson, Daniel Figeys, and Henry S. Duewel
Automated Nanoflow Liquid Chromatography/Tandem Mass Spectrometric Identification of Liver Mihondrial Proteins
Bart Devreese, Frank Vanrobaeys, Elke Lecocq, Joél Smet, Rudy Van Coster, and Jozef VanBeeumen
In Silico Proteomics: Predicting Interactions from Sequence
Joel R. Bock and David A. Gough
Part II. Post-Translational Modifications, Variants, and Isoforms
Predicting Glycan Composition from Experimental Mass Using GlycoMod
Catherine A. Cooper, Elisabeth Gasteiger, and Nicolle H. Packer
Querying GlycoSuiteDB
Catherine A. Cooper, Hiren J. Joshi, Mathew J. Harrison, Marc R. Wilkins, and Nicolle H. Packer
New Tools for Quantitative Phosphoproteome Analysis
Li-Rong Yu, Van M. Hoang, and Timothy D. Veenstra
Computer-Aided Strategies for Characterizing Protein Isoforms
Frédéric Nikitin and Frédérique Lisacek
Protein Variant Separations Using Cation Exchange Chromatography on Grafted, Polymeric Stationary Phases
Michael Weitzhandler, Dell Farnan, Nebojsa Avdalovic, and Chris Pohl
Part III. Specific Systems
Noninvasive Imaging of Protein-Protein Interactions in Living Animals
Gary D. Luker, Vijay Sharma, and David Piwnica-Worms
Strategies in Clinical Proteomics
Eric T. Fung
Proteomic Profiling of the Cancer Microenvironment
Vladimir Knezevic and Michael R. Emmert-Buck
Identification of Determinants of Sensitivity to Antitumor Drugs
Paola Perego, Giovanni Luca Beretta, and Laura Gatti
Application of Proteomics to the Discovery of Serological Tumor Markers
Terence C. W. Poon and Philip J. Johnson
Infectomic Analysis of Microbial Infections Using Proteomics
Sheng-He Huang, Ambrose Jong, and James T. Summersgill
Toward a Complete Proteome of Bacillus subtilis: Cytosolic, Cell Wall-Associated, and Extracellular Proteins
Haike Antelmann, Jan Maarten van Dijl, and Michael Hecker
Renal and Urinary Proteomics
Visith Thongboonkerd, Elias Klein, and Jon B. Klein
Proteomics in Endocrinology
Jan W. A. Smit and
