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Identifying specificity groups in the T cell receptor repertoire

Author

Listed:
  • Jacob Glanville

    (Computational and Systems Immunology Program, Stanford University School of Medicine
    Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine)

  • Huang Huang

    (Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine
    Stanford University School of Medicine)

  • Allison Nau

    (Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine
    Stanford University School of Medicine)

  • Olivia Hatton

    (Stanford University School of Medicine
    Colorado College)

  • Lisa E. Wagar

    (Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine
    Stanford University School of Medicine)

  • Florian Rubelt

    (Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine)

  • Xuhuai Ji

    (Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine
    Human Immune Monitoring Center, Stanford University School of Medicine)

  • Arnold Han

    (Stanford University School of Medicine
    Columbia University)

  • Sheri M. Krams

    (Stanford University School of Medicine)

  • Christina Pettus

    (PSM Biotechnology, University of San Francisco)

  • Nikhil Haas

    (PSM Biotechnology, University of San Francisco)

  • Cecilia S. Lindestam Arlehamn

    (La Jolla Institute for Allergy and Immunology)

  • Alessandro Sette

    (La Jolla Institute for Allergy and Immunology)

  • Scott D. Boyd

    (Stanford University School of Medicine
    Stanford University School of Medicine)

  • Thomas J. Scriba

    (South African Tuberculosis Vaccine Initiative, University of Cape Town)

  • Olivia M. Martinez

    (Stanford University School of Medicine)

  • Mark M. Davis

    (Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine
    Stanford University School of Medicine
    The Howard Hughes Medical Institute, Stanford University School of Medicine)

Abstract

The authors devise an algorithm that can cluster T cell receptor (TCR) sequences sharing the same specificity, predict the HLA restriction of these TCR clusters on the basis of subjects’ genotypes and help to identify specific peptide major histocompatibility complex ligands.

Suggested Citation

  • Jacob Glanville & Huang Huang & Allison Nau & Olivia Hatton & Lisa E. Wagar & Florian Rubelt & Xuhuai Ji & Arnold Han & Sheri M. Krams & Christina Pettus & Nikhil Haas & Cecilia S. Lindestam Arlehamn , 2017. "Identifying specificity groups in the T cell receptor repertoire," Nature, Nature, vol. 547(7661), pages 94-98, July.
    • Handle: RePEc:nat:nature:v:547:y:2017:i:7661:d:10.1038_nature22976
    DOI: 10.1038/nature22976
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    Cited by:

    1. Minotto Thomas & Robert Philippe A. & Hobæk Haff Ingrid & Sandve Geir K., 2024. "Assessing the feasibility of statistical inference using synthetic antibody-antigen datasets," Statistical Applications in Genetics and Molecular Biology, De Gruyter, vol. 23(1), pages 1-14, January.
    2. Ivy K Brown & Nathan Dyjack & Mindy M Miller & Harsha Krovi & Cydney Rios & Rachel Woolaver & Laura Harmacek & Ting-Hui Tu & Brian P O’Connor & Thomas Danhorn & Brian Vestal & Laurent Gapin & Clemenci, 2021. "Single cell analysis of host response to helminth infection reveals the clonal breadth, heterogeneity, and tissue-specific programming of the responding CD4+ T cell repertoire," PLOS Pathogens, Public Library of Science, vol. 17(6), pages 1-34, June.
    3. Maximilian Puelma Touzel & Aleksandra M Walczak & Thierry Mora, 2020. "Inferring the immune response from repertoire sequencing," PLOS Computational Biology, Public Library of Science, vol. 16(4), pages 1-21, April.

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