TY - JOUR
T1 - IMGT/HighV QUEST paradigm for T cell receptor IMGT clonotype diversity and next generation repertoire immunoprofiling
AU - Li, Shuo
AU - Lefranc, Marie-Paule
AU - Miles, John J
AU - Alamyar, Eltaf
AU - Giudicelli, Veronique
AU - Duroux, Patrice
AU - Freeman, John Douglas
AU - Corbin, Vincent D A
AU - Scheerlinck, Jean-Paul
AU - Frohman, Michael A
AU - Cameron, Paul Urquhart
AU - Plebanski, Magdalena
AU - Loveland, Bruce E
AU - Burrows, Scott R
AU - Papenfuss, Anthony Troy
AU - Gowans, Eric J
PY - 2013
Y1 - 2013
N2 - 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. ? 2013 Macmillan Publishers Limited.
AB - 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. ? 2013 Macmillan Publishers Limited.
UR - http://www.nature.com/ncomms/2013/130902/ncomms3333/pdf/ncomms3333.pdf
U2 - 10.1038/ncomms3333
DO - 10.1038/ncomms3333
M3 - Article
VL - 4
SP - 1
EP - 13
JO - Nature Communications
JF - Nature Communications
SN - 2041-1723
IS - Art #: 2333
ER -
