IMGT/HighV QUEST Paradigm for T Cell Receptor IMGT Clonotype Diversity and Next Generation Repertoire Immunoprofiling

Nat Commun. 2013;4:2333. doi: 10.1038/ncomms3333.

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.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Alleles
  • Clone Cells
  • Computational Biology / methods*
  • Flow Cytometry
  • Genetic Variation*
  • Haplotypes / genetics
  • Humans
  • Immunogenetics / methods*
  • Internet*
  • Male
  • Middle Aged
  • Receptors, Antigen, T-Cell / genetics*
  • Receptors, Antigen, T-Cell, alpha-beta / genetics

Substances

  • Receptors, Antigen, T-Cell
  • Receptors, Antigen, T-Cell, alpha-beta