Evidence map›Paper›PMID 35622333›Full record

ArticleMethods in molecular biology (Clifton, N.J.)2022

Adaptive Immune Receptor Repertoire (AIRR) Community Guide to Repertoire Analysis.

Susanna Marquez, Lmar Babrak, Victor Greiff, Kenneth B Hoehn, William D Lees, Eline T Luning Prak, Enkelejda Miho, Aaron M Rosenfeld, Chaim A Schramm, Ulrik Stervbo and 1 more

Abstract read
In one paragraph

Article in Methods in molecular biology (Clifton, N.J.), 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.

0numbers the graph read from it
0cells of the map it votes in
11citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

11 citing papers in PubMed.

  1. Article
  2. Review
  3. Review
  4. Article
  5. Review
  6. Machine learning in AIRR diagnostics: Advances and applications.Immunoinformatics (Amsterdam, Netherlands) · 2025
    Article
  7. Challenges and future directions of AIRR-seq-based diagnostics.Immunoinformatics (Amsterdam, Netherlands) · 2025
    Article
  8. The BCR-SEQC initiative.Nature immunology · 2025
    Article
  9. Article
  10. Article
  11. Adaptive immune receptor genotyping using theFrontiers in immunology · 2023
    Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

11 authors.

Susanna MarquezDepartment of Pathology, Yale School of Medicine, New Haven, CT, USA.
Lmar BabrakInstitute of Biomedical Engineering and Medical Informatics, School of Life Sciences, FHNW University of Applied Sciences and Arts Northwestern Switzerland, Muttenz, Switzerland.
Victor GreiffDepartment of Immunology, University of Oslo, Oslo University Hospital, Oslo, Norway.
Kenneth B HoehnDepartment of Pathology, Yale School of Medicine, New Haven, CT, USA.
William D LeesInstitute of Structural and Molecular Biology, Birkbeck College, University of London, London, UK.
Eline T Luning PrakDepartment of Pathology and Laboratory Medicine, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.
Enkelejda MihoInstitute of Biomedical Engineering and Medical Informatics, School of Life Sciences, FHNW University of Applied Sciences and Arts Northwestern Switzerland, Muttenz, Switzerland.
Aaron M RosenfeldDepartment of Pathology and Laboratory Medicine, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.
Chaim A SchrammVaccine Research Center, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, USA. chaim.schramm@nih.gov.
Ulrik StervboCenter for Translational Medicine, Immunology, and Transplantation, Medical Department I, Marien Hospital Herne, University Hospital of the Ruhr-University Bochum, Herne, Germany. ulrik.stervbo@elisabethgruppe.de.
AIRR Community

Funding

University of Pennsylvania Clinical Autoimmunity Center of ExcellenceUM1AI144288 · NIAID · UNIVERSITY OF PENNSYLVANIA · PI BAR-OR, AMIT, PAYNE, AIMEE S · 2019 to 2023
$551k
NIAID NIH HHS UM1 AI144288
6 · The paper itself

Abstract

Adaptive immune receptor repertoires (AIRRs) are rich with information that can be mined for insights into the workings of the immune system. Gene usage, CDR3 properties, clonal lineage structure, and sequence diversity are all capable of revealing the dynamic immune response to perturbation by disease, vaccination, or other interventions. Here we focus on a conceptual introduction to the many aspects of repertoire analysis and orient the reader toward the uses and advantages of each. Along the way, we note some of the many software tools that have been developed for these investigations and link the ideas discussed to chapters on methods provided elsewhere in this volume.

Indexed as

Receptors, ImmunologicSoftwareReceptors, ImmunologicAIRR-seqAnalysisB-cell receptorClonal structureT-cell receptor

Identifiers

PMID35622333
PMCPMC9761518

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.