Table of Contents

Contents
Filamentous Bacteriophage Structure and Biology, D.J. Rodi, S. Mandava, and L. Makowski
Introduction
Taxonomy and Genetics
Viral Gene Products
Structure of the Virion
Filamentous Bacteriophage Life Cycle
Phage Library Diversity
Biological Bottlenecks: Sources of Library Censorship
Quantitative Diversity Estimation
Improved Library Construction
Vectors and Modes of Display, V.A. Petrenko and G.P. Smith
Introduction
Most Display Vectors are Based on Filamentous Phage
General Cloning Vectors Based on Filamentous Phage
Classification of Filamentous Phage Display Systems
Phage f1—The First Phage-Display Vector
Low DNA Copy Number Display Vectors Based on Fd-Tet
Diversity of Type 3 Vectors
Type 8 Vectors: First Lessons
Mosaic Display in Type nn Systems
Mosaic Display in Phagemid Systems
Vectors for C-Terminal Display
Phage Proteins as Constraining Scaffolds
Conclusion
Methods for the Construction of Phage-Displayed Libraries, F.A. Fellouse and G. Pal
Introduction
Oligonucleotide-Directed Mutagenesis
Random Mutagenesis
Combinatorial Infection and Recombination
DNA Shuffling
Selection and Screening Strategies, M.S. Dennis
Introduction
General Considerations
The Selection Process
Selections Methods
Phage Library for Developing Antibody-Targeted Diagnostics and Vaccines, N.E. van Houten and J.K. Scott
Introduction
Phage-Display Libraries as Tools for Epitope Discovery
Diagnostics
Phage Libraries for Epitope Mapping
Phage Display Libraries for Vaccine
Development
Developing Immunogens From Peptide Leads
Summary
Conclusion
Abbreviations
Exploring Protein–Protein Interactions Using Peptide Libraries Displayed on Phage, K. Deshayes
Introduction
Extracellular Protein–Protein Interactions
Intracellular Protein–Protein Interactions
Conclusions
Substrate Phage Display, S. Ohkubo
Overview
Introduction
The Concept of Substrate Phage Display
Application of Substrate Phage Display to Cancer Research
Conclusions
Mapping Intracellular Protein Networks, Z. Han, E. Karatan, and B.K. Kay
Introduction
Domain-Mediated Interactions
Nondomain Mediated Protein–Protein Interactions
Software for Identifying Candidate Interacting Partners
Analyzing Predicted Interactions
Relevance to Biotechnology and Drug Discovery
High Throughput and High Content Screening Using Peptides, R.O. Carlson, R. Hyde-DeRuyscher, and P.T. Hamilton
Introduction
Peptides as Enzyme Inhibitors
Peptides as Conformational Probes
Summary
Engineering Protein Folding and Stability, M. Tuna and D.N. Woolfson
Protein Redesign and Design
Early Combinatorial Studies Aimed at Repacking the Cores of Proteins
Phage Display in Engineering Protein Stability
A Worked Example: Repacking the Hydrophobic Core of Ubiquitin
Studies that Build on the Original Methods
Summary
Identification of Natural Protein–Protein Interactions with cDNA Libraries, R. Crameri, C. Rhyner, M. Weichel, S. Flückiger, and Z. Konthur
Overview
Introduction
Cloning Vectors
Display of cDNA Libraries on Phage Surface
Problems Associated with the Display of cDNA Libraries on Phage Surface
Adaptability of Phage Display to High-Throughput Screening Technology Conclusions
Mapping Protein Functional Epitopes, S.K. Avrantinis and G.A. Weiss
Introduction
Single Point Alanine Mutagenesis
Combinatorial Site-Specific Mutagenesis
Other Approaches to Phage-Displayed Functional Epitope Mapping
Conclusion
Selections for Enzymatic Catalysts, J. Bertschinger, C. Heinis, and D. Neri
Introduction
Selection Methods
Discussion
Antibody Humanization and Affinity Maturation Using Phage Display, J.S. Marvin and H.B. Lowman
Introduction
Humanization Using Phage Display
In Vitro Affinity Maturation of Antibodies
Emerging Approaches
Conclusions
Antibody Libraries from Immunized Repertoires, J.D. Berry and M. Popkov
Introduction
Immune Antibody Library Construction
Immune Antibody Library Selection
The Future
Acknowledgements
Naïve Antibody Libraries from Natural Repertoires, C.L. Dobson, R.R. Minter, and C.P. Hart-Shorrock
Introduction
Construction of Naïve Libraries
Applications of Naïve Libraries
Synthetic Antibody Libraries, F.A. Fellouse and S.S. Sidhu
Introduction
The Scripps Research Institute
The Medical Research Council
Morphosys
Genentech
Conclusions Index