ArticleBMC bioinformatics2017
The Repertoire Dissimilarity Index as a method to compare lymphocyte receptor repertoires.
Article in BMC bioinformatics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed.
- Human genetic variation shapes the antibody repertoire across B cell development.bioRxiv : the preprint server for biology · 2025Article
- Dietary restriction mitigates the age-associated decline in mouse B cell receptor repertoire diversity.Cell reports · 2023Article
- Comparing T cell receptor repertoires using optimal transport.PLoS computational biology · 2022Article
- AIRRscape: An interactive tool for exploring B-cell receptor repertoires and antibody responses.PLoS computational biology · 2022Article
- Reference-based comparison of adaptive immune receptor repertoires.Cell reports methods · 2022Article
- The effect of genome graph expressiveness on the discrepancy between genome graph distance and string set distance.Bioinformatics (Oxford, England) · 2022Article
- Receptor editing constrains development of phosphatidyl choline-specific B cells in VCell reports · 2022Article
- Extensive age-dependent loss of antibody diversity in naturally short-lived turquoise killifish.eLife · 2022Article
- Comparative Study of Repertoire Classification Methods Reveals Data Efficiency ofFrontiers in immunology · 2022Article
- Divergent Characteristics of T-Cell Receptor Repertoire Between Essential Hypertension and Aldosterone-Producing Adenoma.Frontiers in immunology · 2022Article
- Adaptive Immune Receptor Repertoire (AIRR) Community Guide to Repertoire Analysis.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Machine Learning Approaches to TCR Repertoire Analysis.Frontiers in immunology · 2022Review
- T-Cell Receptor Repertoire Analysis with Computational Tools-An Immunologist's Perspective.Cells · 2021Review
- Individualized VDJ recombination predisposes the available Ig sequence space.Genome research · 2021Article
- Integrin CD11b Negatively Regulates B Cell Receptor Signaling to Shape Humoral Response during Immunization and Autoimmunity.Journal of immunology (Baltimore, Md. : 1950) · 2021Article
- Profiling of T Cell Repertoire in SARS-CoV-2-Infected COVID-19 Patients Between Mild Disease and Pneumonia.Journal of clinical immunology · 2021Article
- Diversity and shared T-cell receptor repertoire analysis in esophageal squamous cell carcinoma.Oncology letters · 2021Article
- Methods for sequence and structural analysis of B and T cell receptor repertoires.Computational and structural biotechnology journal · 2020Review
- Immune repertoire fingerprinting by principal component analysis reveals shared features in subject groups with common exposures.BMC bioinformatics · 2019Article
- sumrep: A Summary Statistic Framework for Immune Receptor Repertoire Comparison and Model Validation.Frontiers in immunology · 2019Article
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Authors and funding
4 authors.
Funding
Abstract
backgroundThe B and T cells of the human adaptive immune system leverage a highly diverse repertoire of antigen-specific receptors to protect the human body from pathogens. The sequencing and analysis of immune repertoires is emerging as an important tool to understand immune responses, whether beneficial or harmful (in the case of autoimmunity). However, methods for studying these repertoires, and for directly comparing different immune repertoires, are lacking.
resultsIn this paper, we present a non-parametric method for directly comparing sequencing repertoires, with the goal of rigorously quantifying differences in V, D, and J gene segment utilization. This method, referred to as the Repertoire Dissimilarity Index (RDI), uses a bootstrapped subsampling approach to account for variance in sequencing depth, and, coupled with a data simulation approach, allows for direct quantification of the average variation between repertoires. We use the RDI method to recapitulate known differences in the formation of the CD4
conclusionsWe prove that the RDI method is an accurate and versatile method for comparisons of immune repertoires. The RDI method has been implemented as an R package, and is available for download through Bitbucket.
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