Adaptive Immune Receptor Repertoire Community recommendations for sharing immune-repertoire sequencing data

Florian Rubelt¹, Christian E Busse², Syed Ahmad Chan Bukhari³, Jean-Philippe Bürckert⁴, Encarnita Mariotti-Ferrandiz⁵, Lindsay G Cowell⁶, Corey T Watson⁷, Nishanth Marthandan⁸, William J Faison⁹, Uri Hershberg¹⁰, Uri Laserson¹¹, Brian D Corrie^{12

13}, Mark M Davis^{1

14}, Bjoern Peters¹⁵, Marie-Paule Lefranc¹⁶, Jamie K Scott^{8

12

17}, Felix Breden^{12

13}; AIRR Community; Eline T Luning Prak¹⁸, Steven H Kleinstein^{3

19}

Affiliations

¹ Department of Microbiology and Immunology and Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, California, USA.
² Division of B Cell Immunology, German Cancer Research Center (DKFZ), Heidelberg, Germany.
³ Department of Pathology, Yale School of Medicine, New Haven, Connecticut, USA.
⁴ Department of Infection and Immunity, Luxembourg Institute of Health, Luxembourg, Luxembourg.
⁵ Sorbonne Universités, UPMC Univ Paris 06, INSERM, UMR_S 959, Immunology-Immunopathology-Immunotherapy (i3), Paris, France.
⁶ Department of Clinical Sciences, UT Southwestern Medical Center, Dallas, Texas, USA.
⁷ Department of Biochemistry and Molecular Genetics, University of Louisville School of Medicine, Louisville, Kentucky, USA.
⁸ Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia, Canada.
⁹ Duke Human Vaccine Institute, Duke University School of Medicine, Durham, North Carolina, USA.
¹⁰ School of Biomedical Engineering, Science & Health Systems, and Department of Microbiology and Immunology, College of Medicine, Drexel University, Philadelphia, Pennsylvania, USA.
¹¹ Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, New York, New York, USA.
¹² iReceptor, Simon Fraser University, Burnaby, British Columbia, Canada.
¹³ Department of Biological Sciences, Simon Fraser University, Burnaby, British Columbia, Canada.
¹⁴ Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, California, USA.
¹⁵ La Jolla Institute for Allergy and Immunology, La Jolla, California, USA.
¹⁶ IMGT, the international ImMunoGeneTics information system, LIGM, Institut de Génétique Humaine IGH, CNRS, University of Montpellier, Montpellier, France.
¹⁷ Faculty of Health Sciences, Simon Fraser University, Burnaby, British Columbia, Canada.
¹⁸ Department of Pathology and Laboratory Medicine, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA.
¹⁹ Department of Immunobiology, Yale School of Medicine, and Interdepartmental Program in Computational Biology and Bioinformatics, Yale University, New Haven, Connecticut, USA.

PMID: 29144493
PMCID: PMC5790180
DOI: 10.1038/ni.3873

Adaptive Immune Receptor Repertoire Community recommendations for sharing immune-repertoire sequencing data

Florian Rubelt et al. Nat Immunol. 2017.

. 2017 Nov 16;18(12):1274-1278.

doi: 10.1038/ni.3873.

Authors

Affiliations

¹ Department of Microbiology and Immunology and Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, California, USA.
² Division of B Cell Immunology, German Cancer Research Center (DKFZ), Heidelberg, Germany.
³ Department of Pathology, Yale School of Medicine, New Haven, Connecticut, USA.
⁴ Department of Infection and Immunity, Luxembourg Institute of Health, Luxembourg, Luxembourg.
⁵ Sorbonne Universités, UPMC Univ Paris 06, INSERM, UMR_S 959, Immunology-Immunopathology-Immunotherapy (i3), Paris, France.
⁶ Department of Clinical Sciences, UT Southwestern Medical Center, Dallas, Texas, USA.
⁷ Department of Biochemistry and Molecular Genetics, University of Louisville School of Medicine, Louisville, Kentucky, USA.
⁸ Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia, Canada.
⁹ Duke Human Vaccine Institute, Duke University School of Medicine, Durham, North Carolina, USA.
¹⁰ School of Biomedical Engineering, Science & Health Systems, and Department of Microbiology and Immunology, College of Medicine, Drexel University, Philadelphia, Pennsylvania, USA.
¹¹ Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, New York, New York, USA.
¹² iReceptor, Simon Fraser University, Burnaby, British Columbia, Canada.
¹³ Department of Biological Sciences, Simon Fraser University, Burnaby, British Columbia, Canada.
¹⁴ Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, California, USA.
¹⁵ La Jolla Institute for Allergy and Immunology, La Jolla, California, USA.
¹⁶ IMGT, the international ImMunoGeneTics information system, LIGM, Institut de Génétique Humaine IGH, CNRS, University of Montpellier, Montpellier, France.
¹⁷ Faculty of Health Sciences, Simon Fraser University, Burnaby, British Columbia, Canada.
¹⁸ Department of Pathology and Laboratory Medicine, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA.
¹⁹ Department of Immunobiology, Yale School of Medicine, and Interdepartmental Program in Computational Biology and Bioinformatics, Yale University, New Haven, Connecticut, USA.

PMID: 29144493
PMCID: PMC5790180
DOI: 10.1038/ni.3873

Abstract

High-throughput sequencing of B and T cell receptors is routinely being applied in studies of adaptive immunity. The Adaptive Immune Receptor Repertoire (AIRR) Community was formed in 2015 to address issues in AIRR sequencing studies, including the development of reporting standards for the sharing of data sets.

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Conflict of interest statement

COMPETING FINANCIAL INTERESTS

The authors declare no competing financial interests.

Figures

**Figure 1**
The organization of and interactions among the AIRR Community.

**Figure 2**
An overview of the six MiAIRR sets and associated data fields, along with their target submission repositories at NCBI.

See this image and copyright information in PMC

References

1. Litman GW, Cannon JP, Dishaw LJ. Nat Rev Immunol. 2005;5:866–879. - PMC - PubMed
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1. Liu XS, Mardis ER. Cell. 2017;168:600–612. - PMC - PubMed
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Adaptive Immune Receptor Repertoire Community recommendations for sharing immune-repertoire sequencing data

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Adaptive Immune Receptor Repertoire Community recommendations for sharing immune-repertoire sequencing data

Authors

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Abstract

Conflict of interest statement

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