Reproducibility and reuse of adaptive immune receptor repertoire data

Felix Breden, Eline T. Luning Prak, Bjoern Peters, Florian Rubelt, Chaim A. Schramm, Christian E. Busse, Jason A. Vander Heiden, Scott Christley, Syed Ahmad Chan Bukhari, Adrian Thorogood, Frederick A. Matsen, Yariv Wine, Uri Laserson, David Klatzmann, Daniel C. Douek, Marie Paule Lefranc, Andrew M. Collins, Tania Bubela, Steven H. Kleinstein, Corey T. WatsonLindsay G. Cowell, Jamie K. Scott, Thomas B. Kepler

Research output: Contribution to journalArticle

30 Citations (Scopus)

Abstract

High-throughput sequencing (HTS) of immunoglobulin (B-cell receptor, antibody) and T-cell receptor repertoires has increased dramatically since the technique was introduced in 2009 (1-3). This experimental approach explores the maturation of the adaptive immune system and its response to antigens, pathogens, and disease conditions in exquisite detail. It holds significant promise for diagnostic and therapy-guiding applications. New technology often spreads rapidly, sometimes more rapidly than the understanding of how to make the products of that technology reliable, reproducible, or usable by others. As complex technologies have developed, scientific communities have come together to adopt common standards, protocols, and policies for generating and sharing data sets, such as the MIAME protocols developed for microarray experiments. The Adaptive Immune Receptor Repertoire (AIRR) Community formed in 2015 to address similar issues for HTS data of immune repertoires. The purpose of this perspective is to provide an overview of the AIRR Community's founding principles and present the progress that the AIRR Community has made in developing standards of practice and data sharing protocols. Finally, and most important, we invite all interested parties to join this effort to facilitate sharing and use of these powerful data sets (join@airr-community.org).

Original languageEnglish (US)
Article number1418
JournalFrontiers in Immunology
Volume8
Issue numberNOV
DOIs
StatePublished - Nov 1 2017

Fingerprint

Technology
Information Dissemination
T-Cell Antigen Receptor
Immune System
B-Lymphocytes
Antigens
Antibodies
Datasets
Therapeutics
immunoglobulin B

Keywords

  • Antibodies
  • B-cell receptors
  • Community standards
  • Data sharing
  • High-throughput sequencing
  • Immunogenetics
  • Immunoglobulins
  • T-cell receptors

ASJC Scopus subject areas

  • Immunology and Allergy
  • Immunology

Cite this

Breden, F., Luning Prak, E. T., Peters, B., Rubelt, F., Schramm, C. A., Busse, C. E., ... Kepler, T. B. (2017). Reproducibility and reuse of adaptive immune receptor repertoire data. Frontiers in Immunology, 8(NOV), [1418]. https://doi.org/10.3389/fimmu.2017.01418

Reproducibility and reuse of adaptive immune receptor repertoire data. / Breden, Felix; Luning Prak, Eline T.; Peters, Bjoern; Rubelt, Florian; Schramm, Chaim A.; Busse, Christian E.; Vander Heiden, Jason A.; Christley, Scott; Bukhari, Syed Ahmad Chan; Thorogood, Adrian; Matsen, Frederick A.; Wine, Yariv; Laserson, Uri; Klatzmann, David; Douek, Daniel C.; Lefranc, Marie Paule; Collins, Andrew M.; Bubela, Tania; Kleinstein, Steven H.; Watson, Corey T.; Cowell, Lindsay G.; Scott, Jamie K.; Kepler, Thomas B.

In: Frontiers in Immunology, Vol. 8, No. NOV, 1418, 01.11.2017.

Research output: Contribution to journalArticle

Breden, F, Luning Prak, ET, Peters, B, Rubelt, F, Schramm, CA, Busse, CE, Vander Heiden, JA, Christley, S, Bukhari, SAC, Thorogood, A, Matsen, FA, Wine, Y, Laserson, U, Klatzmann, D, Douek, DC, Lefranc, MP, Collins, AM, Bubela, T, Kleinstein, SH, Watson, CT, Cowell, LG, Scott, JK & Kepler, TB 2017, 'Reproducibility and reuse of adaptive immune receptor repertoire data', Frontiers in Immunology, vol. 8, no. NOV, 1418. https://doi.org/10.3389/fimmu.2017.01418
Breden F, Luning Prak ET, Peters B, Rubelt F, Schramm CA, Busse CE et al. Reproducibility and reuse of adaptive immune receptor repertoire data. Frontiers in Immunology. 2017 Nov 1;8(NOV). 1418. https://doi.org/10.3389/fimmu.2017.01418
Breden, Felix ; Luning Prak, Eline T. ; Peters, Bjoern ; Rubelt, Florian ; Schramm, Chaim A. ; Busse, Christian E. ; Vander Heiden, Jason A. ; Christley, Scott ; Bukhari, Syed Ahmad Chan ; Thorogood, Adrian ; Matsen, Frederick A. ; Wine, Yariv ; Laserson, Uri ; Klatzmann, David ; Douek, Daniel C. ; Lefranc, Marie Paule ; Collins, Andrew M. ; Bubela, Tania ; Kleinstein, Steven H. ; Watson, Corey T. ; Cowell, Lindsay G. ; Scott, Jamie K. ; Kepler, Thomas B. / Reproducibility and reuse of adaptive immune receptor repertoire data. In: Frontiers in Immunology. 2017 ; Vol. 8, No. NOV.
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