ArticlePLoS computational biology2020
Population variability in the generation and selection of T-cell repertoires.
Article in PLoS computational biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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Who cites it
35 citing papers in PubMed, 63 citations in OpenAlex.
- Predicting specificity of TCR-pMHC interactions using machine-learning and biophysical models.Cell systems · 2026Article
- Defining treatment-resistant brain cancer: Genetic screening to identify oncogene-driven immunomodulation and therapy resistance.Cancer gene therapy · 2026Review
- ClareV: a contrastive learning framework for context-aware TRBV representations in TCR repertoires.Frontiers in immunology · 2026Article
- Genetic and environmental imprints on T cell receptor repertoires as predictors of graft-versus-host disease.bioRxiv : the preprint server for biology · 2025Article
- Perspectives on label-free microscopy of heterogeneous and dynamic biological systems.Journal of biomedical optics · 2025Article
- Neighborhood enrichment for the identification of antigen-specific T-cell receptors.Briefings in bioinformatics · 2025Article
- Phage display enables machine learning discovery of cancer antigen-specific TCRs.Science advances · 2025Article
- Disease diagnostics using machine learning of B cell and T cell receptor sequences.Science (New York, N.Y.) · 2025Article
- Optimizing clustering of CDR3 sequences using natural language processing, Word2Vec, and KMeans.Frontiers in bioinformatics · 2025Article
- The Evolving T Cell Receptor Recognition Code: The Rules Are More Like Guidelines.Immunological reviews · 2025Review
- Combining mutation and recombination statistics to infer clonal families in antibody repertoires.eLife · 2024Article
- Deep learning predictions of TCR-epitope interactions reveal epitope-specific chains in dual alpha T cells.Nature communications · 2024Article
- Innate-like T cell subset commitment in the murine thymus is independent of TCR characteristics and occurs during proliferation.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Dandelion uses the single-cell adaptive immune receptor repertoire to explore lymphocyte developmental origins.Nature biotechnology · 2024Article
- A transfer-learning approach to predict antigen immunogenicity and T-cell receptor specificity.eLife · 2023Article
- A novel approach to T-cell receptor beta chain (TCRB) repertoire encoding using lossless string compression.Bioinformatics (Oxford, England) · 2023Article
- Article
- T-Cell Receptor Repertoire Sequencing in the Era of Cancer Immunotherapy.Clinical cancer research : an official journal of the American Association for Cancer Research · 2023Article
- Modeling and predicting the overlap of B- and T-cell receptor repertoires in healthy and SARS-CoV-2 infected individuals.PLoS genetics · 2023Article
- Prevalent and immunodominant CD8 T cell epitopes are conserved in SARS-CoV-2 variants.Cell reports · 2023Article
Corrections and comments
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Authors and funding
6 authors at 2 institutions in 3 countries.
Funding
Abstract
The diversity of T-cell receptor (TCR) repertoires is achieved by a combination of two intrinsically stochastic steps: random receptor generation by VDJ recombination, and selection based on the recognition of random self-peptides presented on the major histocompatibility complex. These processes lead to a large receptor variability within and between individuals. However, the characterization of the variability is hampered by the limited size of the sampled repertoires. We introduce a new software tool SONIA to facilitate inference of individual-specific computational models for the generation and selection of the TCR beta chain (TRB) from sequenced repertoires of 651 individuals, separating and quantifying the variability of the two processes of generation and selection in the population. We find not only that most of the variability is driven by the VDJ generation process, but there is a large degree of consistency between individuals with the inter-individual variance of repertoires being about ∼2% of the intra-individual variance. Known viral-specific TCRs follow the same generation and selection statistics as all TCRs.
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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.