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

doi: 10.1038/ni.3873.

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.

PubMed Disclaimer

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

Cited by

Biological controls for standardization and interpretation of adaptive immune receptor repertoire profiling.
Trück J, Eugster A, Barennes P, Tipton CM, Luning Prak ET, Bagnara D, Soto C, Sherkow JS, Payne AS, Lefranc MP, Farmer A; AIRR Community; Bostick M, Mariotti-Ferrandiz E. Trück J, et al. Elife. 2021 May 26;10:e66274. doi: 10.7554/eLife.66274. Elife. 2021. PMID: 34037521 Free PMC article. Review.
Reference-based comparison of adaptive immune receptor repertoires.
Weber CR, Rubio T, Wang L, Zhang W, Robert PA, Akbar R, Snapkov I, Wu J, Kuijjer ML, Tarazona S, Conesa A, Sandve GK, Liu X, Reddy ST, Greiff V. Weber CR, et al. Cell Rep Methods. 2022 Aug 22;2(8):100269. doi: 10.1016/j.crmeth.2022.100269. eCollection 2022 Aug 22. Cell Rep Methods. 2022. PMID: 36046619 Free PMC article.
AIRRscape: An interactive tool for exploring B-cell receptor repertoires and antibody responses.
Waltari E, Nafees S, McCutcheon KM, Wong J, Pak JE. Waltari E, et al. PLoS Comput Biol. 2022 Sep 20;18(9):e1010052. doi: 10.1371/journal.pcbi.1010052. eCollection 2022 Sep. PLoS Comput Biol. 2022. PMID: 36126074 Free PMC article.
Using synthetic chromosome controls to evaluate the sequencing of difficult regions within the human genome.
Reis ALM, Deveson IW, Madala BS, Wong T, Barker C, Xu J, Lennon N, Tong W, Mercer TR; SEQC2 Consortium. Reis ALM, et al. Genome Biol. 2022 Jan 12;23(1):19. doi: 10.1186/s13059-021-02579-6. Genome Biol. 2022. PMID: 35022065 Free PMC article.
IMGT^® Immunoinformatics Tools for Standardized V-DOMAIN Analysis.
Giudicelli V, Duroux P, Rollin M, Aouinti S, Folch G, Jabado-Michaloud J, Lefranc MP, Kossida S. Giudicelli V, et al. Methods Mol Biol. 2022;2453:477-531. doi: 10.1007/978-1-0716-2115-8_24. Methods Mol Biol. 2022. PMID: 35622340 Free PMC article.

See all "Cited by" articles

References

1. Litman GW, Cannon JP, Dishaw LJ. Nat Rev Immunol. 2005;5:866–879. - PMC - PubMed
1. Tonegawa S. Nature. 1983;302:575–581. - PubMed
1. Davis MM, Bjorkman PJ. Nature. 1988;334:395–402. - PubMed
1. Liu XS, Mardis ER. Cell. 2017;168:600–612. - PMC - PubMed
1. Hou D, Chen C, Seely EJ, Chen S, Song Y. Front Immunol. 2016;7:336. - PMC - PubMed

MeSH terms

Actions
Actions
Actions
Actions
Actions
Actions

Save citation to file

Email citation

Add to Collections

Add to My Bibliography

Your saved search

Create a file for external citation management software

Your RSS Feed

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

Affiliations

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

Authors

Affiliations

Abstract

Conflict of interest statement

Figures

Similar articles

Cited by

References

MeSH terms

Substances

Grants and funding

LinkOut - more resources

Full Text Sources

Other Literature Sources

Abstract

Conflict of interest statement

Figures

Similar articles

Cited by

References

MeSH terms

Substances

Related information

Grants and funding

LinkOut - more resources

Full Text Sources

Other Literature Sources