Chapter 4. Vaccines: Data and Databases

  1. Darren R Flower

Published Online: 24 DEC 2009

DOI: 10.1002/9780470699836.ch4

Bioinformatics for Vaccinology

Bioinformatics for Vaccinology

How to Cite

Flower, D. R. (2008) Vaccines: Data and Databases, in Bioinformatics for Vaccinology, John Wiley & Sons, Ltd, Chichester, UK. doi: 10.1002/9780470699836.ch4

Author Information

  1. Edward Jenner Institute for Vaccine Research, Compton, Berkshire, UK

Publication History

  1. Published Online: 24 DEC 2009
  2. Published Print: 7 NOV 2008

ISBN Information

Print ISBN: 9780470027110

Online ISBN: 9780470699836

SEARCH

Keywords:

  • vaccines - data and databases;
  • genome and genomics and ‘-omes’ and ‘-omics’;
  • ‘-ome’ and immunome;
  • T cell responses - major histocompatibility complex (MHC) restriction;
  • amino acids - chiral nature;
  • protein sequences as one-letter codes;
  • hydrophobicity, lipophilicity, and partitioning;
  • mapping world of sequences;
  • genomic and proteomic annotation

Summary

This chapter contains sections titled:

  • Making sense of data

  • Knowledge in a box

  • The science of -omes and -omics

  • The proteome

  • Systems biology

  • The immunome

  • Databases and databanks

  • The relational database

  • The XML database

  • The protein universe

  • Much data, many databases

  • What proteins do

  • What proteins are

  • The amino acid world

  • The chiral nature of amino acids

  • Naming the amino acids

  • The amino acid alphabet

  • Defining amino acid properties

  • Size, charge and hydrogen bonding

  • Hydrophobicity, lipophilicity and partitioning

  • Understanding partitioning

  • Charges, ionization, and pka

  • Many kinds of property

  • Mapping the world of sequences

  • Biological sequence databases

  • Nucleic acid sequence databases

  • Protein sequence databases

  • Annotating databases

  • Text mining

  • Ontologies

  • Secondary sequence databases

  • Other databases

  • Databases in immunology

  • Host databases

  • Pathogen databases

  • Functional immunological databases

  • Composite, integrated databases

  • Allergen databases

  • Further reading

  • Reference