Functional Proteomics

A Brief Summary of the Different Types of Mass Spectrometers Used in Proteomics.- Experimental Setups and Considerations to Study Microbial Interactions.- Proteomics.- Plant Proteomics.- Methods for Human CD8+ T Lymphocyte Proteome Analysis.- Label-Free Proteomics of Serum.- Flow Cytometric Analysis of Cell Membrane Microparticles.- Protein Expression Profiling.- Exosomes.- Toward a Full Characterization of the Human 20S Proteasome Subunits and Their Isoforms by a Combination of Proteomic Approaches.- Free-Flow Electrophoresis of the Human Urinary Proteome.- Versatile Screening for Binary Protein-Protein Interactions by Yeast Two-Hybrid Mating.- Native Fractionation: Isolation of Native Membrane-Bound Protein Complexes from Porcine Rod Outer Segments Using Isopycnic Density Gradient Centrifugation.- Mapping of Signaling Pathways by Functional Interaction Proteomics.- Selection of Recombinant Antibodies by Eukaryotic Ribosome Display.- Production of Protein Arrays by Cell-Free Systems.- Nondenaturing Mass Spectrometry to Study Noncovalent Protein/Protein and Protein/Ligand Complexes: Technical Aspects and Application to the Determination of Binding Stoichiometries.- Protein Processing Characterized by a Gel-Free Proteomics Approach.- Identification and Characterization of N-Glycosylated Proteins Using Proteomics.- Protein Analysis.- Data Standards and Controlled Vocabularies for Proteomics.- The PRIDE Proteomics Identifications Database: Data Submission, Query, and Dataset Comparison.- Searching the Protein Interaction Space Through the MINT Database.- PepSeeker: Mining Information from Proteomic Data.- Toward High-Throughput and Reliable Peptide Identification via MS/MS Spectra.- MassSorter: Peptide Mass Fingerprinting Data Analysis.- Database Similarity Searches.- Protein Multiple Sequence Alignment.- Discovering Biomedical Knowledge from the Literature.- Protein Subcellular Localization Prediction Using Artificial Intelligence Technology.- Protein Functional Annotation by Homology.- Designability and Disease.- Prism: Protein-Protein Interaction Prediction by Structural Matching.- Prediction of Protein Interaction Based on Similarity of Phylogenetic Trees.- Large Multiprotein Structures Modeling and Simulation: The Need for Mesoscopic Models.- Dynamic Pathway Modeling of Signal Transduction Networks: A Domain-Oriented Approach.

From the reviews:

“The new book, Functional Proteomics, Methods and Protocols … is the perfect guide to securely navigating through the plethora of recent as well as established proteomic technologies. … In summary, I highly recommend this book as an excellent source for gaining insight into a diverse array of the latest proteomic protocols … . suitable for everyone working in the field of proteomics, including chemists, biologists, analytical chemists, and biochemists at different career stages, from students to the trained and experienced scientist.” (Stephan A. Sieber, ChemBioChem, Vol. 10 (18), 2009)

“Book presents a collection of methods about correct techniques to identify, monitor, quantify, and explain protein and peptide function. … present different types of mass spectrometers and their uses, allowing the reader to choose the most useful technique for a specific purpose. … The strategy behind metabolomic studies is well described in this book. … The book concludes with the indispensable application of bioinformatics in the understanding of regulatory and protein systems which are influenced by the environment.” (Mario Hiroyuki Hirata, Brazilian Journal of Pharmaceutical Sciences, 2010)

“The field of proteomics continues to develop rapidly and its main focus has now moved from increasing capacity for protein identification to quantification and the analysis of post-translational modifications. … this volume attempts to provide detail regarding some of the latest approaches being used. … will be of use to many PhD students and postdoctoral scientists … . a well-written and informative book, and one which would be useful to have in any proteomics lab … .” (Lucas Bowler, Microbiology Today, August, 2010)