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Type: Journal article
Title: IMGT/HighV QUEST paradigm for T cell receptor IMGT clonotype diversity and next generation repertoire immunoprofiling
Author: Li, S.
Lefranc, M.
Miles, J.
Alamyar, E.
Giudicelli, V.
Duroux, P.
Freeman, J.
Corbin, V.
Scheerlinck, J.
Frohman, M.
Cameron, P.
Plebanski, M.
Loveland, B.
Burrows, S.
Papenfuss, A.
Gowans, E.
Citation: Nature Communications, 2013; 4(1):1-13
Publisher: Nature Publishing Group
Issue Date: 2013
ISSN: 2041-1723
Statement of
Shuo Li, Marie-Paule Lefranc, John J. Miles, Eltaf Alamyar, Véronique Giudicelli, Patrice Duroux, J. Douglas Freeman, Vincent D. A. Corbin, Jean-Pierre Scheerlinck, Michael A. Frohman, Paul U. Cameron, Magdalena Plebanski, Bruce Loveland, Scott R. Burrows, Anthony T. Papenfuss, & Eric J. Gowans
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.
Keywords: Biological sciences; Bioinformatics; Genetics; Immunology
Rights: © 2013 Macmillan Publishers Limited. All rights reserved.
RMID: 0020131953
DOI: 10.1038/ncomms3333
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