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Immunoinformatics of the V, C, and G Domains: IMGT® Definitive System for IG, TR and IgSF, MH, and MhSF

  • Marie-Paule Lefranc
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 1184)

Abstract

By its creation in 1989, IMGT®, the international ImMunoGeneTics information system® (http://www.imgt.org, CNRS and Université Montpellier 2), marked the advent of immunoinformatics, which emerged at the interface between immunogenetics and bioinformatics. IMGT® is the global reference in immunogenetics and immunoinformatics. The accuracy and the consistency of the IMGT® data are based on the IMGT Scientific chart rules generated from the IMGT-ONTOLOGY axioms and concepts, which comprise IMGT standardized labels (DESCRIPTION), IMGT gene and allele nomenclature (CLASSIFICATION), IMGT unique numbering, and IMGT Collier de Perles (NUMEROTATION). The IMGT® standards have bridged the gap between genes, sequences, and three-dimensional (3D) structures for the receptors, chains, and domains. Started specifically for the immunoglobulins (IG) or antibodies and T cell receptors (TR), the IMGT-ONTOLOGY concepts have been extended to conventional genes of the immunoglobulin superfamily (IgSF) and major histocompatibility (MH) superfamily (MhSF), members of which are defined by the presence of at least one variable (V) or constant (C) domain, or two groove (G) domains, respectively. In this chapter, we review the IMGT® definitive system for the V, C, and G domains, based on the IMGT-ONTOLOGY concepts of IMGT unique numbering and IMGT Collier de Perles.

Key words

IMGT Immunoinformatics Immunogenetics IMGT-ONTOLOGY IMGT Collier de Perles IMGT unique numbering Immunoglobulin Antibody T cell receptor Major histocompatibility 

Notes

Acknowledgements

We are grateful to Gérard Lefranc for helpful discussion, Souphatta Sasorith for help in the figures and the IMGT® team for its expertise and constant motivation. We thank Cold Spring Harbor Protocol Press for the pdf of the IMGT Booklet available in IMGT references. IMGT® is a registered trademark of CNRS. IMGT® is member of the International Medical Informatics Association (IMIA). IMGT® was funded in part by the BIOMED1 (BIOCT930038), Biotechnology BIOTECH2 (BIO4CT960037), 5th PCRDT Quality of Life and Management of Living Resources (QLG2-2000-01287), and 6th PCRDT Information Science and Technology (ImmunoGrid, FP6 IST-028069) programmes of the European Union (EU). IMGT® is currently supported by the Centre National de la Recherche Scientifique (CNRS), the Ministère de l’Enseignement Supérieur et de la Recherche (MESR), the University Montpellier 2, the Agence Nationale de la Recherche (ANR) Labex MabImprove (ANR-10-LABX-53-01), the Région Languedoc-Roussillon (Grand Plateau Technique pour la Recherche (GPTR)). This work was granted access to the HPC resources of CINES under the allocation 036029 (2010–2014) made by GENCI (Grand Equipement National de Calcul Intensif).

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Copyright information

© Springer Science+Business Media New York 2014

Authors and Affiliations

  1. 1.IMGT®, The international ImMunoGeneTics information system®, Laboratoire d’ImmunoGénétique Moléculaire, LIGMInstitut de Génétique Humaine IGHMontpellier cedex 5France

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