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IMGT/HighV QUEST paradigm for T cell receptor IMGT clonotype diversity and next generation repertoire immunoprofiling. 2013
Shuo Li, and
Marie-Paule Lefranc, and
John J Miles, and
Eltaf Alamyar, and
Véronique Giudicelli, and
Patrice Duroux, and
J Douglas Freeman, and
Vincent D A Corbin, and
Jean-Pierre Scheerlinck, and
Michael A Frohman, and
Paul U Cameron, and
Magdalena Plebanski, and
Bruce Loveland, and
Scott R Burrows, and
Anthony T Papenfuss, and
Eric J Gowans
Department of Microbiology and Immunology, The University of Melbourne, Parkville, Victoria 3052, Australia.
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.
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Magdalena Plebanski, and
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Michael A Frohman, and
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