Protein Sequence Variants: Resources and Tools

Abstract

Originally published in: Biomedical Applications of Proteomics. Edited by Jean-Charles Sanchez, Garry L. Corthals and Denis F. Hochstrasser. Copyright © 2004 Wiley-VCH Verlag GmbH & Co. KGaA Weinheim. Print ISBN: 3-527-30807-1

The sections in this article are

• Introduction
• Medical Protein Annotation
• Databases
  • Central Databases
    • Online Mendelian Inheritance in Man (OMIM)
    • The Human Gene Mutation Database (HGMD)
    • The SNP Databases
    • Advantages and Drawbacks of Central Databases
  • Specialized Databases
    • An Example of a Locus-specific Database: the IARC TP53 Database
    • An Example of a Disease-oriented Specialized Database: Retina International's Scientific Newsletter – Mutation Database
    • Other Locus-specific Databases
    • Advantages and Drawbacks of Specialized Databases
  • The Swiss-Prot Protein Knowledgebase and Information on Disease and Sequence Variations
    • Gene Names
    • Description of Diseases
    • Proteins as Therapeutic Drugs
    • Data on Variants
    • Cross-references
    • Medical-oriented Keywords
  • Techniques of Search
  • Challenges for Databases
• Analysis Tools in the Context of Protein Variants
  • Proteomic Tools for Protein Identification and the Characterization of Variants
    • Protein Identification Tools
    • Peptide Characterization Tools
  • Tools for Analyzing and/or Predicting the Effects of Protein Variants
    • Sequence-based Analysis or Prediction Tools
    • Structure-based Analysis or Prediction Tools
    • The Swiss-Prot Variant Page and Comparative Modeling
    • Remarks
• Conclusions