Functional proteomics
Subtitle: methods and protocols
By: edited by Julie D. Thompson, Christine Schaeffer-Reiss, Marius Ueffing.
Contributors: Thompson, Julie D.; Schaeffer-Reiss, Christine.; Ueffing, Marius.
Series: Methods in molecular biology -- 484; Methods in molecular biology (Clifton, N.J.) -- 484.
Publisher: Humana Press
Published: 2008
Place of publication: Totowa, NJ
Language: eng
Number of pages: 595
ISBN-13: 9781588299710; 9781597453981
Subjects: Proteomics; Proteomics -- methods
Description: As the emerging field of proteomics continues to expand at an extremely rapid rate, the relative quantification of proteins, targeted by their function, becomes its greatest challenge. Complex analytical strategies have been designed that allow comparative analysis of large proteomes, as well as in depth detection of the core proteome or the interaction network of a given protein of interest. Here expert researchers describe the latest protocols being developed to address the problems encountered in high-throughput proteomics projects. With emphasis on the factors governing the technical choices for given applications. As a part of the Methods in Molecular Biology. series, the chapters compile step-by-step, readily reproducible laboratory protocols, lists of the necessary materials and reagents, and tips on troubleshooting and avoiding known pitfalls.
Notes: Includes bibliographical references and index.
Table of contents: title: A brief summary of the different types of mass spectrometers used in proteomics / Christine Schaeffer-Reiss; title: Experimental setups and considerations to study microbial interactions / Petter Melin; title: Plant proteomics / Eric Sarnighausen and Ralf Reski; title: Methods for human CD8+ T lymphocyte proteome analysis / Lynne Thadikkaran ... [et al.]; title: Label-free proteomics of serum / Natalia Govorukhina, Peter Horvatovich, and Rainer Bischoff; title: Flow cytometric analysis of cell membrane microparticles / Monique P. Gelderman and Jan Simak; title: Exosomes / Joost P.J.J. Hegmans, Peter J. Gerber, and Bart N. Lambrecht; title: Toward a full characterization of the human 20S proteasome subunits and their isoforms by a combination of proteomic approaches / Sandrine Uttenweiler-Joseph ... [et al.]; title: Free-flow electrophoresis of the human urinary proteome / Mikkel Nissum and Robert Wildgruber; title: Versatile screening for binary protein-protein interactions by yeast two-hybrid mating / Stef J.F. Letteboer and Ronald Roepman; title: Native fractionation : isolation of native membrane-bound protein complexes from porcine rod outer segments using isopycnic density gradient centrifugation / Magdalena Swiatek-de Lange, Bernd Müller, and Marius Ueffing; title: Mapping the signaling pathways by functional interaction proteomics / Alex von Kriegsheim, Christian Preisinger, and Walter Kolch; title: Selection of recombinant antibodies by eukaryotic ribosome display / Mingyue He and Michael J. Taussig; title: Production of protein arrays by cell-free systems / Mingyue He and Michael J. Taussig; title: Nondenaturing mass spectrometry to study noncovalent protein/protein and protein/ligand complexes : technical aspects and application to the determination of binding stoichiometries / Sarah Sanglier ... [et al.]; title: Protein processing characterized by a gel-free proteomics approach / Petra Van Damme ... [et al.]; title: Identification and characterization of N-glycosylated proteins using proteomics / David S. Selby ... [et al.]; title: Data standards and controlled vocabularies for proteomics / Lennart Martens, Luisa Montecchi Palazzi, and Henning Hermjakob; title: The PRIDE proteomics identifications database : data submission, query, and dataset comparison / Philip Jones and Richard Côté; title: Searching the protein interaction space through the MINT database / Andrew Chatr-aryamontri ... [et al.]; title: PepSeeker : mining information from proteomic data / Jennifer A. Siepen, Julian N. Selley, and Simon J. Hubbard; title: Toward high-throughput and reliable peptide identification via MS/MS spectra / Jian Liu; title: MassSorter : peptide mass fingerprinting data analysis / Ingvar Eidhammer, Harald Barsnes and Svein-Ole Mikalsen; title: Database similarity searches / Frédéric Plewniak; title: Protein multiple sequence alignment / Chuong B. Do and Kazutaka Katoh; title: Discovering biomedical knowledge from the literature / Jasmin Šaríc, Henriette Engelken, and Uwe Reyle; title: Protein subcellular localization prediction using artificial intelligence technology / Rajesh Nair and Burkhard Rost; title: Protein functional annotation by homology / Raja Mazumder, Sona Vasudevan, and Anastasia N. Nikolskaya; title: Designability and disease / Philip Wong and Dmitrij Frishman; title: Prism : protein-protein interaction prediction by structural matching / Ozlem Keskin, Ruth Nussinov, and Attila Gursoy; title: Prediction of protein interaction based on similarity of phylogenetic trees / Florencio Pazos ... [et al.]; title: Large multiprotein structures modeling and simulation : the need for mesoscopic models / Antoine Coulon, Guillaume Beslon, and Olivier Gandrillon; title: Dynamic pathway modeling of signal transduction networks : a domain-oriented approach / Holger Conzelmann and Ernst-Dieter Gilles.