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Computer-Aided Vaccine Design

Book Description

Computational pre-screening of antigens is now routinely applied to the discovery of vaccine candidates.

Computer-aided vaccine design is a comprehensive introduction to this exciting field of study. The book is intended to be a textbook for researchers and for courses in bioinformatics, as well as a laboratory reference guide. It is written mainly for biologists who want to understand the current methods of computer-aided vaccine design. The contents are designed to help biologists appreciate the underlying concepts and algorithms used, as well as limitations of the methods and strategies for their use. Chapters include: MHC and T cell responses; Immunoglobulins and B cell responses; Scientific publications and databases; Database design; Computational T cell vaccine design; Computational B cell vaccine design; infectious disease informatics; Vaccine safety and quality assessments; and Vaccine adjuvant informatics.

  • Essential reading for any biologist who wants to understand methods of computer-aided vaccine design
  • Description of available data sources and publicly available software, with detailed analysis of strengths and weaknesses
  • Theoretical concepts and practical examples of database design and development for a virtual screening campaign

Table of Contents

  1. Cover image
  2. Title page
  3. Table of Contents
  4. Copyright
  5. List of figures
  6. List of abbreviations
  7. About the authors
  8. Preface
  9. Chapter 1: MHC and T cell responses
    1. Abstract:
    2. 1.1 Genetic organization of the MHC
    3. 1.2 MHC structure
    4. 1.3 MHC function
    5. 1.4 Peptide binding
  10. Chapter 2: Immunoglobulins and B cell responses
    1. Abstract:
    2. 2.1 Types of immunoglobulins
    3. 2.2 Immunoglobulin structure
    4. 2.3 Immunoglobulin function
    5. 2.4 Antigen binding
  11. Chapter 3: Scientific publications and databases
    1. Abstract:
    2. 3.1 Bibliographical information
    3. 3.2 Searching the literature
    4. 3.3 General databases containing information on genes and proteins
    5. 3.4 Immunological databases
    6. 3.5 Small molecule databases
  12. Chapter 4: Database design
    1. Abstract:
    2. 4.1 Fundamentals of database design
    3. 4.2 ER diagram
    4. 4.3 Normalization and normal forms
  13. Chapter 5: Computational T cell vaccine design
    1. Abstract:
    2. 5.1 Sequence-based methods
    3. 5.2 Structure-based methods
    4. 5.3 Broad-based T cell vaccine design
  14. Chapter 6: Computational B cell vaccine design
    1. Abstract:
    2. 6.1 Sequence-based methods
    3. 6.2 Structure-based methods
  15. Chapter 7: Infectious disease informatics
    1. Abstract:
    2. 7.1 Infectious diseases in history
    3. 7.2 Microbial sequence analysis
    4. 7.3 Detecting natural selection in molecular evolution
  16. Chapter 8: Vaccine safety and quality assessments
    1. Abstract:
    2. 8.1 Assessment of ADME/Tox deficiencies
    3. 8.2 Assessment of allergenicity
  17. Chapter 9: Vaccine adjuvant informatics
    1. Abstract:
    2. 9.1 Virtual combinatorial library
    3. 9.2 Chemical file formats
    4. 9.3 Considerations for virtual library design
  18. Index