Proteomics for drug discovery : methods and protocols

Front Matter ....Pages i-xi
 A Photoaffinity Labeling-Based Chemoproteomics Strategy for Unbiased Target Deconvolution of Small Molecule Drug Candidates  (Jason R. Thomas, Scott M. Brittain, Jennifer Lipps, Luis Llamas, Rishi K. Jain, Markus Schirle)....Pages 1-18
 Multiplexed Liquid Chromatography-Multiple Reaction Monitoring Mass Spectrometry Quantification of Cancer Signaling Proteins  (Yi Chen, Kate J. Fisher, Mark Lloyd, Elizabeth R. Wood, Domenico Coppola, Erin Siegel et al.)....Pages 19-45
 Monitoring Dynamic Changes of the Cell Surface Glycoproteome by Quantitative Proteomics  (Mathias Kalxdorf, Hans Christian Eberl, Marcus Bantscheff)....Pages 47-59
 High-Resolution Parallel Reaction Monitoring with Electron Transfer Dissociation for Middle-Down Proteomics: An Application to Study the Quantitative Changes Induced by Histone Modifying Enzyme Inhibitors and Activators  (Michael J. Sweredoski, Annie Moradian, Sonja Hess)....Pages 61-69
 Preparation and Immunoaffinity Depletion of Fresh Frozen Tissue Homogenates for Mass Spectrometry-Based Proteomics in the Context of Drug Target/Biomarker Discovery  (DaRue A. Prieto, King C. Chan, Donald J. Johann Jr, Xiaoying Ye, Gordon Whitely, Josip Blonder)....Pages 71-90
 Target Identification Using Cell Permeable and Cleavable Chloroalkane Derivatized Small Molecules  (Jacqui L. Mendez-Johnson, Danette L. Daniels, Marjeta Urh, Rachel Friedman Ohana)....Pages 91-108
 Microfluidics-Mass Spectrometry of Protein-Carbohydrate Interactions: Applications to the Development of Therapeutics and Biomarker Discovery  (Alina D. Zamfir)....Pages 109-128
 Studying Protein–Protein Interactions by Biotin AP-Tagged Pulldown and LTQ-Orbitrap Mass Spectrometry  (Zhongqiu Xie, Yuemeng Jia, Hui Li)....Pages 129-138
 Post-Translational Modification Profiling-Functional Proteomics for the Analysis of Immune Regulation  (Avital Eisenberg-Lerner, Ifat Regev, Yifat Merbl)....Pages 139-152
 Reverse Phase Protein Arrays and Drug Discovery  (Kenneth G. Macleod, Bryan Serrels, Neil O. Carragher)....Pages 153-169
 Probing Protein Kinase-ATP Interactions Using a Fluorescent ATP Analog  (Leslie E. W. LaConte, Sarika Srivastava, Konark Mukherjee)....Pages 171-183
 Preparation of Disease-Related Protein Assemblies for Single Particle Electron Microscopy  (A. Cameron Varano, Naoe Harafuji, William Dearnaley, Lisa Guay-Woodford, Deborah F. Kelly)....Pages 185-196
 Identification of Lipid Binding Modulators Using the Protein-Lipid Overlay Assay  (Tuo-Xian Tang, Wen Xiong, Carla V. Finkielstein, Daniel G. S. Capelluto)....Pages 197-206
 Resazurin Live Cell Assay: Setup and Fine-Tuning for Reliable Cytotoxicity Results  (José Á. Rodríguez-Corrales, Jatinder S. Josan)....Pages 207-219
 Exploring Protein-Protein Interactions as Drug Targets for Anti-cancer Therapy with In Silico Workflows  (Alexander Goncearenco, Minghui Li, Franco L. Simonetti, Benjamin A. Shoemaker, Anna R. Panchenko)....Pages 221-236
 Method to Identify Silent Codon Mutations That May Alter Peptide Elongation Kinetics and Co-translational Protein Folding  (Ronald Worthington, Elijah Ball, Brentsen Wolf, Gregory Takacs)....Pages 237-243
 In Silico Design of Anticancer Peptides  (Shailesh Kumar, Hui Li)....Pages 245-254
 Docking and Virtual Screening in Drug Discovery  (Maria Kontoyianni)....Pages 255-266
 Bioinformatics Resources for Interpreting Proteomics Mass Spectrometry Data  (Iulia M. Lazar)....Pages 267-295
Back Matter ....Pages 297-302