ArticlePloS one2016
bcRep: R Package for Comprehensive Analysis of B Cell Receptor Repertoire Data.
Article in PloS one, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed, 26 citations in OpenAlex.
- Genetic background shapes the naïve IgM B cell receptor repertoire in mice.Frontiers in immunology · 2026Article
- A method for polyclonal antigen-specific T cell-targeted genome editing (TarGET) for adoptive cell transfer applications.Molecular therapy. Methods & clinical development · 2023Article
- B-cell receptor repertoire sequencing: Deeper digging into the mechanisms and clinical aspects of immune-mediated diseases.iScience · 2022Review
- Longitudinal Dynamics of Human B-Cell Response at the Single-Cell Level in Response to Tdap Vaccination.Vaccines · 2021Article
- Linear space string correction algorithm using the Damerau-Levenshtein distance.BMC bioinformatics · 2020Article
- Methods for sequence and structural analysis of B and T cell receptor repertoires.Computational and structural biotechnology journal · 2020Review
- Article
- Physiological and druggable skipping of immunoglobulin variable exons in plasma cells.Cellular & molecular immunology · 2019Article
- Comparative analysis of CDR3 regions in paired human αβ CD8 T cells.FEBS open bio · 2019Article
- Host and parasite responses in human diffuse cutaneous leishmaniasis caused by L. amazonensis.PLoS neglected tropical diseases · 2019Article
- sumrep: A Summary Statistic Framework for Immune Receptor Repertoire Comparison and Model Validation.Frontiers in immunology · 2019Article
- Detection of a Low Level and Heterogeneous B Cell Immune Response in Peripheral Blood of Acute Borreliosis Patients With High Throughput Sequencing.Frontiers in immunology · 2019Article
- BRepertoire: a user-friendly web server for analysing antibody repertoire data.Nucleic acids research · 2018Article
- The immunoglobulin heavy chain 3' regulatory region superenhancer controls mouse B1 B-cell fate and late VDJ repertoire diversity.Blood advances · 2018Article
- Analyzing Immunoglobulin Repertoires.Frontiers in immunology · 2018Review
Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Immunoglobulins, as well as T cell receptors, play a key role in adaptive immune responses because of their ability to recognize antigens. Recent advances in next generation sequencing improved also the quality and quantity of individual B cell receptors repertoire sequencing. Unfortunately, appropriate software to exhaustively analyze repertoire data from NGS platforms without limitations of the number of sequences are lacking. Here we introduce a new R package, bcRep, which offers a platform for comprehensive analyses of B cell receptor repertoires, using IMGT/HighV-QUEST formatted data. Methods for gene usage statistics, clonotype classification, as well as diversity measures, are included. Furthermore, functions to filter datasets, to do summary statistics about mutations, as well as visualization methods, are available. To compare samples in respect of gene usage, diversity, amino acid proportions, similar sequences or clones, several functions including also distance measurements, as well as multidimensional scaling methods, are provided.
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Registered trials
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.