Functional Proteomics: Methods and Protocols

Front Matter ....Pages i-xii
 Making the Case for Functional Proteomics  (Ray C. Perkins)....Pages 1-40
 Methods to Monitor the Functional Subproteomes of SERPIN Protease Inhibitors  (Swapan Roy, Matthew Kuruc)....Pages 41-54
 Two-Dimensional 16-BAC/SDS Polyacrylamide Gel Electrophoresis of Mitochondrial Membrane Proteins  (Gary Smejkal, Srikanth Kakumanu)....Pages 55-68
 Systematic Glycolytic Enzyme Activity Analysis from Human Serum with PEP Technology  (David Wang)....Pages 69-81
 A Protein Decomplexation Strategy in Snake Venom Proteomics  (Choo Hock Tan, Kae Yi Tan, Nget Hong Tan)....Pages 83-92
 Fractionation Techniques to Increase Plant Proteome Coverage: Combining Separation in Parallel at the Protein and the Peptide Level  (Martin Černý, Miroslav Berka, Hana Habánová)....Pages 93-105
 A Systematic Analysis Workflow for High-Density Customized Protein Microarrays in Biomarker Screening  (Rodrigo García-Valiente, Jonatan Fernández-García, Javier Carabias-Sánchez, Alicia Landeira-Viñuela, Rafael Góngora, María Gonzalez-Gonzalez et al.)....Pages 107-122
 Metaproteomics Study of the Gut Microbiome  (Lisa A. Lai, Zachary Tong, Ru Chen, Sheng Pan)....Pages 123-132
 Double One-Dimensional Electrophoresis (D1-DE) Adapted for Immunoproteomics  (Youcef Shahali, Hélène Sénéchal, Pascal Poncet)....Pages 133-141
 BioID: A Proximity-Dependent Labeling Approach in Proteomics Study  (Peipei Li, Yuan Meng, Li Wang, Li-jun Di)....Pages 143-151
 Functional Application of Snake Venom Proteomics in In Vivo Antivenom Assessment  (Choo Hock Tan, Kae Yi Tan)....Pages 153-158
 Proteomic Detection of Carbohydrate-Active Enzymes (CAZymes) in Microbial Secretomes  (Tina R. Tuveng, Vincent G. H. Eijsink, Magnus Ø. Arntzen)....Pages 159-177
 An Overview of Mass Spectrometry-Based Methods for Functional Proteomics  (J. Robert O’Neill)....Pages 179-196
 Functional Proteomic Analysis to Characterize Signaling Crosstalk  (Sneha M. Pinto, Yashwanth Subbannayya, T. S. Keshava Prasad)....Pages 197-224
 Identification of Unexpected Protein Modifications by Mass Spectrometry-Based Proteomics  (Shiva Ahmadi, Dominic Winter)....Pages 225-251
 Label-Free LC-MS/MS Strategy for Comprehensive Proteomic Profiling of Human Islets Collected Using Laser Capture Microdissection from Frozen Pancreata  (Lina Zhang, Giacomo Lanzoni, Matteo Battarra, Luca Inverardi, Qibin Zhang)....Pages 253-264
 Targeted Proteomics  (Yun Chen, Liang Liu)....Pages 265-277
 Metabolomic Investigation of Staphylococcus aureus Antibiotic Susceptibility by Liquid Chromatography Coupled to High-Resolution Mass Spectrometry  (Sandrine Aros-Calt, Florence A. Castelli, Patricia Lamourette, Gaspard Gervasi, Christophe Junot, Bruno H. Muller et al.)....Pages 279-293
 Nuts and Bolts of Protein Quantification by Online Trypsin Digestion Coupled LC-MS/MS Analysis  (Christopher A. Toth, Zsuzsanna Kuklenyik, John R. Barr)....Pages 295-311
 Proteases: Pivot Points in Functional Proteomics  (Ingrid M. Verhamme, Sarah E. Leonard, Ray C. Perkins)....Pages 313-392
 The Use of Combinatorial Hexapeptide Ligand Library (CPLL) in Allergomics  (Youcef Shahali, Hélène Sénéchal, Pascal Poncet)....Pages 393-403
 Efficient Extraction and Digestion of Gluten Proteins  (Haili Li, Keren Byrne, Crispin A. Howitt, Michelle L. Colgrave)....Pages 405-412
 Glycosylation Profiling of Tumor Marker in Plasma Using Bead-Based Immunoassay  (Hongye Wang, Zheng Cao, Hu Duan, Xiaobo Yu)....Pages 413-420
 Protein-Specific Analysis of Invertebrate Glycoproteins  (Alba Hykollari, Daniel Malzl, Iain B. H. Wilson, Katharina Paschinger)....Pages 421-435
 The Use of Proteomics Studies in Identifying Moonlighting Proteins  (Constance Jeffery)....Pages 437-443
 Two-Dimensional Biochemical Purification for Global Proteomic Analysis of Macromolecular Protein Complexes  (Reza Pourhaghighi, Andrew Emili)....Pages 445-454
 A Data Analysis Protocol for Quantitative Data-Independent Acquisition Proteomics  (Sami Pietilä, Tomi Suomi, Juhani Aakko, Laura L. Elo)....Pages 455-465
Back Matter ....Pages 467-477