Bioinformatics for Immunomics

1. Front Matter

   Pages i-xvi

   PDF

2. Computational Vaccinology

   • Matthew N. Davies, Darren R. Flower

   Pages 1-20

3. The Immuno Polymorphism Database

   • James Robinson, Steven G. E. Marsh

   Pages 21-32

4. The IMGT/HLA Database

   • James Robinson, Steven G. E. Marsh

   Pages 33-45

5. Ontology Development for the Immune Epitope Database

   • Jason A. Greenbaum, Randi Vita, Laura M. Zarebski, Alessandro Sette, Bjoern Peters

   Pages 47-56

6. TEPIDAS: A DAS Server for Integrating T-Cell Epitope Annotations

   • M. García-Boronat, C. M. Díez-Rivero, Pedro Reche

   Pages 57-65

7. Databases and Web-Based Tools for Innate Immunity

   • Sneh Lata, G. P. S. Raghava

   Pages 67-76

8. Structural Immunoinformatics: Understanding MHC-Peptide-TR Binding

   • Javed Mohammed Khan, Joo Chuan Tong, Shoba Ranganathan

   Pages 77-93

9. Discovery of Conserved Epitopes Through Sequence Variability Analyses

   • Carmen M. Díez-Rivero, Pedro Reche

   Pages 95-101

10. Tunable Detectors for Artificial Immune Systems: From Model to Algorithm

    • Paul S. Andrews, Jon Timmis

    Pages 103-127

11. Defining the Elusive Molecular Self

    • Matthew N. Davies, Darren R. Flower

    Pages 129-155

12. A Bioinformatic Platform for a Bayesian, Multiphased, Multilevel Analysis in Immunogenomics

    • P. Antal, A. Millinghoffer, G. Hullám, G. Hajós, Cs. Szalai, A. Falus

    Pages 157-185

13. Back Matter

    Pages 187-192

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Like many words, the term “immunomics” equates to different ideas contingent on context. For a brief span, immunomics meant the study of the Immunome, of which there were, in turn, several different definitions. A now largely defunct meaning rendered the Immunome as the set of antigenic peptides or immunogenic proteins within a single microorganism – be that virus, bacteria, fungus, or parasite – or microbial population, or antigenic or allergenic proteins and peptides derived from the environment as a whole, containing also proteins from eukaryotic sources. However, times have changed and the meaning of immunomics has also changed. Other newer definitions of the Immunome have come to focus on the plethora of immunological receptors and accessory molecules that comprise the host immune arsenal. Today, Immunomics or immunogenomics is now most often used as a synonym for high-throughput genome-based immunology. This is the study of aspects of the immune system using high-throughput techniques within a conc- tual landscape borne of both clinical and biophysical thinking.

• Annotation
• Proteomics
• bioinformatics
• databases
• genome
• instrumentation

• Research, Edward Jenner Inst. for Vaccine, Berkshire, United Kingdom

  Darren D.R. Flower

• Birkbeck College, University of London, London, United Kingdom

  Matthew Davies

• Dept. Chemistry &, Macquarie University, North Ryde, Sydney, Australia

  Shoba Ranganathan

Policies and ethics