IMGT/HighV QUEST paradigm for T cell receptor IMGT clonotype diversity and next generation repertoire immunoprofiling
Li, Shuo, Lefranc, Marie-Paule, Miles, John J., Alamyar, Eltaf, Giudicelli, Véronique, Duroux, Patrice, Freeman, J. Douglas, Corbin, Vincent D.A., Scheerlinck, Jean-Pierre, Frohman, Michael A., Cameron, Paul U., Plebanski, Magdalena, Loveland, Bruce, Burrows, Scott, Papenfuss, Anthony T., and Gowans, Eric J. (2013) IMGT/HighV QUEST paradigm for T cell receptor IMGT clonotype diversity and next generation repertoire immunoprofiling. Nature Communications, 4. 2333. pp. 1-13.
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Abstract
T cell repertoire diversity and clonotype follow-up in vaccination, cancer, infectious and immune diseases represent a major challenge owing to the enormous complexity of the data generated. Here we describe a next generation methodology, which combines 5'RACE PCR, 454 sequencing and, for analysis, IMGT, the international ImMunoGeneTics information system (IMGT), IMGT/HighV-QUEST web portal and IMGT-ONTOLOGY concepts. The approach is validated in a human case study of T cell receptor beta (TRB) repertoire, by chronologically tracking the effects of influenza vaccination on conventional and regulatory T cell subpopulations. The IMGT/HighV-QUEST paradigm defines standards for genotype/haplotype analysis and characterization of IMGT clonotypes for clonal diversity and expression and achieves a degree of resolution for next generation sequencing verifiable by the user at the sequence level, while providing a normalized reference immunoprofile for human TRB.
| Item ID: | 45063 |
|---|---|
| Item Type: | Article (Research - C1) |
| ISSN: | 2041-1723 |
| Additional Information: | This work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivs 3.0 Unported License. To view a copy of this license, visit http://creativecommons.org/licenses/by-nc-nd/3.0/ |
| Funders: | National Health and Medical Research Council (NHMRC), Wales Office of Research and Development (WORD), Victorian Operational Infrastructure Support Program (VOISP), Ministère de l’Enseignement supérieur et de la Rechercherieur et de la Recherche (MESR), Centre National de la Recherche Scientifique (CNRS), Université Montpellier 2, France (UM2F) |
| Projects and Grants: | NHMRC 543143 |
| Date Deposited: | 10 Aug 2016 02:15 |
| FoR Codes: | 11 MEDICAL AND HEALTH SCIENCES > 1107 Immunology > 110702 Applied Immunology (incl Antibody Engineering, Xenotransplantation and T-cell Therapies) @ 100% |
| SEO Codes: | 92 HEALTH > 9201 Clinical Health (Organs, Diseases and Abnormal Conditions) > 920108 Immune System and Allergy @ 100% |
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