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This volume summarizes the new developments that made subcellular proteomics a rapidly expanding area. Recent success stories demonstrated that the combination of subcellular prefractionation methods with proteomic analysis is a very potent approach to simplify complex protein extracts from cells or tissues and to detect low abundance proteins. It also made clear that sophisticated strategies encompassing sample preparation, analytics and validation steps were required to fully exploit the potential of subcellular proteomics.
Three sections are devoted to the different levels of subcellular organization and their specific methodologies. This is completed by a section on systems biology that deals with the integration of the data derived from these different levels to produce a synthetic description of the cell as a system. A survey of the most advanced technical developments in proteomics is also included, which covers single cell analysis methods, molecular imaging and LC-MALDI. Written by a panel of leading experts in the field, this book represents an unprecedented attempt to reflect state-of-the-art methodology and also to convey both the mode of thinking and the hype of this discipline.
Introduction Section 1: Membrane proteomics Keynotes on membrane proteomics Thierry Rabilloud Two-dimensional BAC/SDS-PAGE for membrane proteomics Rene P. Zahedi, Jan Moebius and Albert Sickmann Microparticles: a new tool for plasma membrane sub-cellular proteomic Laurent Miguet, Sarah Sanglier, Christine Schaeffer, Noelle Potier, Laurent Mauvieux and Alain Van Dorsselaer. Lipid raft proteomics: more than just detergent-resistant membranes Leonard J. Foster and Queenie W. T. Chan Section 2: Organelle subproteomes Organelle Proteome Variation Among Different Cell Types: Lessons from Nuclear Membrane Proteins Deirdre M. Kavanagh, William E. Powell, Poonam Malik, Vassiliki Lazou and Eric C. Schirmer Synaptosome Proteomics Fengju Bai and Frank A. Witzmann Proteomic analysis of secreted exosomes Christine Olver and Michel Vidal Section 3: Characterization of supramolecular protein complexes From Protein-Protein Complexes to Interactomics Vincent Collura and Guillaume Boissy Supramolecular signalling complexes in the nervous system Mark O. Collins and Seth G.N. Grant Protein networks and complexes in photoreceptor cilia Ronald Roepman and Uwe Wolfrum Section 4: Subcellular systems biology Systems Biology and the Reconstruction of the Cell: from molecular components to integral function Frank J. Bruggeman, Sergio Rossell, Karen van Eunen, Jildau Bouwman, Hans V. Westerhoff and Barbara Bakker Automated, Systematic Determination of Protein Subcellular Location using Fluorescence Microscopy Elvira Garcia Osuna and Robert F. Murphy Systems biology of the Endoplasmic Reticulum stress response Marie-Elaine Caruso and Eric Chevet Section 5: Emerging technologies in proteomics Systems Nanobiology: From Quantitative Single Molecule Biophysics to Microfluidic-Based Single Cell Analysis Joerg Martini, Wibke Hellmich, Dominik Greif, Anke Becker, Thomas Merkle, Robert Ros, Alexandra Ros, Katja Toensing and Dario Anselmetti Biophotonics applied to proteomics Michel Faupel, Debora Bonenfant, Patrick Schindler, Eric Bertrand Dieter Mueller, Markus Stoeckli, Francis Bitsch, Tatiana Rohner, Dieter Staab and Jan Van Oostrum Differential epitope identification of antibodies against intracellular domains of Alzheimer's amyloid precursor protein using high resolution affinity- mass spectrometry Xiaodan Tian, Madalina Maftei, Markus Kohlmann, Bernadette Allinquant and Michael Przybylski LC-MALDI MS and MS/MS -- An Efficient Tool in Proteome Analysis Dieter R. Mueller, Hans Voshol, Annick Waldt, Brigitte Wiedmann and Jan van Oostrum