ArticleCell reports methods2022
Reference-based comparison of adaptive immune receptor repertoires.
Article in Cell reports methods, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
- Medical software for precision diagnostics of infection with immunoprofiling and artificial intelligence.Journal of translational medicine · 2026Review
- Evaluating the utility of amino acid similarity-aware kmers to represent TCR repertoires for classification.PLoS computational biology · 2026Article
- Identification of a type 1 diabetes-associated T cell receptor repertoire signature from the human peripheral blood.Science advances · 2026Article
- Explore antibody repertoire in the era of AI.Acta biochimica et biophysica Sinica · 2025Article
- AnalyzAIRR: A user-friendly guided workflow for AIRR data analysis.Immunoinformatics (Amsterdam, Netherlands) · 2025Article
- Simulation of adaptive immune receptors and repertoires with complex immune information to guide the development and benchmarking of AIRR machine learning.Nucleic acids research · 2025Article
- Predictability of antigen binding based on short motifs in the antibody CDRH3.Briefings in bioinformatics · 2024Article
- Benchmarking and integrating human B-cell receptor genomic and antibody proteomic profiling.NPJ systems biology and applications · 2024Article
- Enhancing comparative T cell receptor repertoire analysis in small biological samples through pooling homologous cell samples from multiple mice.Cell reports methods · 2024Article
- Building Representation Learning Models for Antibody Comprehension.Cold Spring Harbor perspectives in biology · 2024Review
- GENTLE: a novel bioinformatics tool for generating features and building classifiers from T cell repertoire cancer data.BMC bioinformatics · 2023Article
- On the feasibility of using TCR sequencing to follow a vaccination response - lessons learned.Frontiers in immunology · 2023Article
- Comparing T cell receptor repertoires using optimal transport.PLoS computational biology · 2022Article
- CompAIRR: ultra-fast comparison of adaptive immune receptor repertoires by exact and approximate sequence matching.Bioinformatics (Oxford, England) · 2022Article
- AIRRscape: An interactive tool for exploring B-cell receptor repertoires and antibody responses.PLoS computational biology · 2022Article
- Profiling the baseline performance and limits of machine learning models for adaptive immune receptor repertoire classification.GigaScience · 2022Article
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Authors and funding
15 authors.
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No grant is acknowledged in the PubMed record.
Abstract
B and T cell receptor (immune) repertoires can represent an individual's immune history. While current repertoire analysis methods aim to discriminate between health and disease states, they are typically based on only a limited number of parameters. Here, we introduce immuneREF: a quantitative multidimensional measure of adaptive immune repertoire (and transcriptome) similarity that allows interpretation of immune repertoire variation by relying on both repertoire features and cross-referencing of simulated and experimental datasets. To quantify immune repertoire similarity landscapes across health and disease, we applied immuneREF to >2,400 datasets from individuals with varying immune states (healthy, [autoimmune] disease, and infection). We discovered, in contrast to the current paradigm, that blood-derived immune repertoires of healthy and diseased individuals are highly similar for certain immune states, suggesting that repertoire changes to immune perturbations are less pronounced than previously thought. In conclusion, immuneREF enables the population-wide study of adaptive immune response similarity across immune states.
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