Peptide Microarrays: Methods and Protocols

Part I: Introduction 1. Exploring and Profiling Protein Function with Peptide Arrays Victor E. Tapia, Bernhard Ay, and Rudolf Volkmer 2. Peptide Arrays for Enzyme Profiling Alexandra Thiele, Johannes Zerweck, and Mike Schutkowski 3. Using Peptide Array to Identify Binding Motifs and Interaction Networks for Modular Domains Shawn S.-C. Li and Chenggang Wu 4. Molecular Simulations of Peptides: A Useful Tool for the Development of New Drugs and for the Study of Molecular Recognition Massimiliano Meli and Giorgio Colombo Part II: Applications 5. Synthesis of Peptide Arrays Using SPOT-Technology and the CelluSpots-Method Dirk F.H. Winkler, Kai Hilpert, Ole Brandt, and Robert E.W. Hancock 6. Rapid Identification of Linear Protein Domain Binding Motifs Using Peptide SPOT Arrays Douglas J. Briant, James M. Murphy, Genie C. Leung, and Frank Sicheri 7. Characterization of Kinase Target Phosphorylation Consensus Motifs Using Peptide SPOT Arrays Genie C. Leung, James M. Murphy, Douglas J. Briant, and Frank Sicheri 8. CelluSpotsTM: A Reproducible Means of Making Peptide Arrays for the Determination of SH2 Domains Binding Specificity Chenggang Wu and Shawn S.-C. Li 9. High Density Peptide Microarrays for Reliable Identification of Phosphorylation Sites and Upstream Kinases Alexandra Thiele, Johannes Zerweck, Matthias Weiwad, Gunter Fischer, and Mike Schutkowski 10. Epitope Mapping of Human Chromogranin A by Peptide Microarrays Marina Cretich, Renato Longhi, Angelo Corti, Francesco Damin, Gabriele Di Carlo, Valentina Sedini, and Marcella Chiari 11. Antimicrobial Peptide Arrays for Detection of Inactivated Biothreat Agents Chris R. Taitt, Stella H. North, and Nadezhda V. Kulagina 12. Mapping Functional Prion-Prion Protein Interaction Sites Using Prion Protein Based Peptide Arrays Alan Rigter, Jan Priem, Drophatie Timmers-Parohi, Jan P.M. Langeveld, and Alex Bossers 13. A Designed Peptide Chip: Protein Fingerprinting Technology with a Dry Peptide Array and Statistical Data Mining Kenji Usui, Kin-ya Tomizaki, and Hisakazu Mihara Part III: Technological Advancements 14. Peptide Microarrays on Bisphenol A Polycarbonate Vianney Souplet, Clément Roux, and Oleg Melnyk 15. Self Assembly of PNA-Encoded Peptides into Microarrays Francois Debaene and Nicolas Winssinger 16. A Novel Combinatorial Approach to High Density Peptide Arrays Mario Beyer, Ines Block, Kai König, Alexander Nesterov, Simon Fernandez, Thomas Felgenhauer, Christopher Schirwitz, Klaus Leibe, Ralf F. Bischoff, Frank Breitling, and Volker Stadler 17. Polypyrrole-Peptide Microarray for Biomolecular Interaction Analysis by SPR Imaging Marie-Bernadette Villiers, Sandra Cortès, Carine Brakha, Patrice Marche, André Roget, and Thierry Livache 18. The Peptide Microarray Based Assay for Kinase Functionality and Inhibition Study Zhenxin Wang 19. An Advanced Application of Protein Microarrays: Cell Based Assays for Functional Genomics Roberta Carbone 20. Profiling the Autoantibody Repertoire by Screening Phage-Displayed Human cDNA Libraries Roberto Di Niro, Sara D'Angelo, Paola Secco, Roberto Marzari, Claudio Santoro, and Daniele Sblattero Part IV: Software/Web Tools and Data Analysis 21. Visualisation and Pre-processing of Peptide Microarray Data Marie Reilly and Davide Valentini 22. Web-Based Design of Peptide Microarrays Using µPepArray