Appendix

APPENDIX 1W Using Bioinformatics Tools for the Sequence Analysis of Immunoglobulins and T Cell Receptors

  1. Marie-Paule Lefranc

Published Online: 1 MAR 2006

DOI: 10.1002/0471142735.ima01ws71

Current Protocols in Immunology

Current Protocols in Immunology

How to Cite

Lefranc, M.-P. 2006. Using Bioinformatics Tools for the Sequence Analysis of Immunoglobulins and T Cell Receptors. Current Protocols in Immunology. 71:1W:A.1W.1–A.1W.15.

Author Information

  1. IMGT, Université Montpellier II, CNRS, Montpellier, France

Publication History

  1. Published Online: 1 MAR 2006
  2. Published Print: FEB 2006

Abstract

The huge potential repertoire of 1012 immunoglobulins and 1012 T cell receptors per individual results from complex mechanisms of combinatorial diversity between the variable (V), diversity (D), and junction (J) genes, nucleotide deletions and insertions (N-diversity) at the junctions and, for the immunoglobulins, somatic hypermutations. The accurate analysis of rearranged immunoglobulin and T cell receptor sequences, and the annotation of the junctions, therefore represent a huge challenge. The IMGT Scientific chart rules, based on the IMGT-ONTOLOGY concepts, were the prerequisites for the implementation of the IMGT/V-QUEST and IMGT/JunctionAnalysis tools. IMGT/V-QUEST analyzes germline V and rearranged V-J or V-D-J nucleotide sequences. IMGT/JunctionAnalysis is the first tool that automatically analyzes the complex junctions in detail. These interactive tools are easy to use and freely available on the Web (http://imgt.cines.fr), either separately or integrated.

Keywords:

  • IMGT;
  • immunoglobulin;
  • T cell receptor;
  • rearrangement;
  • immunogenetics;
  • immunoinformatics;
  • junction analysis;
  • sequence diversity;
  • Collier de Perles;
  • variable gene;
  • variable domain;
  • IMGT/V-QUEST;
  • IMGT/JunctionAnalysis