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When the last edition of this book was published in 2000, the field of proteomics was in its infancy. Now in its adolescence, proteomics is fundamentally transforming biological and medical research. This updated second edition is a valuable resource.

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Preface Contributors Generation and Analysis of Multidimensional Protein Identification Technology Datasets Selene K. Swanson, Laurence Florens and Michael P. Washburn Quantitative Peptide and Protein Profiling by Mass Spectrometry Alexander Schmidt, Birgit Bisle and Thomas Kislinger Label Free Relative Quantitation of Prokaryotic Proteomes Using the Accurate Mass and Time Tag Approach Kim K. Hixson Classical Proteomics: Two-dimensional Electrophoresis/MALDI Mass Spectrometry Ursula Zimny-Arndt, Monika Schmid, Renate Ackermann and Peter R. Jungblut The Use of Difference In-Gel Electrophoresis for Quantitation of Protein Expression Rajat Sapra Liquid-Chromatography-Mass Spectrometry of Thylakoid Membrane Proteins Christian G. Huber, Anna-Maria Timperio, Hansjörg Toll and Lello Zolla High Accuracy Mass Spectrometry in Large-Scale Analysis of Protein Phosphorylation Jesper V. Olsen and Boris Macek Manual Validation of Peptide Sequence and Sites of Tyrosine Phosphorylation from MS/MS Spectra Amy Nichols and Forest White Assigning Glycosylation Sites and Microheterogeneities in Glycoproteins by Liquid Chromatography/Tandem Mass Spectrometry Yehia Mechref, Milan Madera and Milos V. Novotny Structure Analysis of N-glycoproteins Stefanie Henning, Jasna Peter-Katalinic and Gottfried Pohlentz Capillary Zone Electrophoresis-mass Spectrometry for the Characterization of Isoforms of Intact Glycoproteins Christian Neusüß and Matthias Pelzing Top-down Proteomics on a High-field Fourier Transform Ion Cyclotron Resonance Mass spectrometer Séverine A. Ouvry-Patat, Matthew P. Torres,Craig Gelfand, Hung-Hiang Quek, Michael Easterling, J. Paul Speir and Christoph H. Borchers Capillary Isoelectric Focusing/Reversed Phase Liquid Chromatography/Mass Spectrometry Cheng S. Lee and Brian M. Balgley Integrating Accelerated Tryptic Digestion into Proteomics Workflows Gordon W. Slysz and David C. Schriemer Hydrogen/Deuterium Exchange Mass Spectrometry Xuguang Yan and Claudia S. Maier Mass Spectrometry Detection and Characterization of Noncovalent Protein Complexes Sheng Yin and Joseph A. Loo Chemical Cross-linking for Protein-protein Interaction Studies Xiaoting Tang and James E. Bruce Tissue Analysis with High Resolution Imaging Mass Spectrometry A.F. Maarten Altelaar and Ron M.A. Heeren Proteomic Global Profiling for Cancer Biomarker Discovery Samir Hanash Analysis of Protein Glycosylation and Phosphorylation Using Liquid Phase Separation, Protein Microarray Technology and Mass Spectrometry Jia Zhao, Tasneem H. Patwa, Manoj Pal, Weilian Qiu and David M. Lubman Transthyretin Mass Determination for Detection of Transthyretin Familial Amyloid John F. O´Brien and H. Robert Bergen, III Characterization of Microorganisms by MALDI Mass Spectrometry Catherine E. Petersen, Nancy B. Valentine and Karen L. Wahl Mass Spectrometric Characterization Of Neuropeptides Stephanie S. DeKeyser, James A. Dowell and Lingjun Li Peptide and Protein Ion/Ion Reactions in Electrodynamic Ion Traps: Tools and Methods Scott A. McLuckey Electron Capture Dissociation LC/MS/MS for Bottom-Up Proteomics Roman A. Zubarev Two-Dimensional Ion Mobility Analyses of

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