1,205 results found
    1. Computational and Systems Biology
    2. Immunology and Inflammation

    The naive T-cell receptor repertoire has an extremely broad distribution of clone sizes

    Peter C de Greef, Theres Oakes ... Rob J de Boer
    Combining experiments, bioinformatics, and mathematical modelling, we find large heterogeneity in naive T cell clone sizes.
    1. Computational and Systems Biology
    2. Immunology and Inflammation

    Longitudinal high-throughput TCR repertoire profiling reveals the dynamics of T-cell memory formation after mild COVID-19 infection

    Anastasia A Minervina, Ekaterina A Komech ... Mikhail V Pogorelyy
    Longitudinal tracking of individual T-cell clones reveals the expansion of pre-existing T-cell memory in response to SARS-CoV-2 infection.
    1. Physics of Living Systems
    2. Immunology and Inflammation

    Early life imprints the hierarchy of T cell clone sizes

    Mario U Gaimann, Maximilian Nguyen ... Andreas Mayer
    The rapid development of immune memory in infancy shapes the composition of T cell defenses throughout the human lifespan.
    1. Computational and Systems Biology
    2. Immunology and Inflammation

    Human T cell receptor occurrence patterns encode immune history, genetic background, and receptor specificity

    William S DeWitt III, Anajane Smith ... Philip Bradley
    An analysis of T cell receptor occurrence patterns that accounts for MHC restriction reveals striking imprints of common viral pathogens and patterns of TCR-HLA sequence covariation in a large human cohort.
    1. Cancer Biology

    The T cell receptor β chain repertoire of tumor infiltrating lymphocytes improves neoantigen prediction and prioritization

    Thi Mong Quynh Pham, Thanh Nhan Nguyen ... Le Son Tran
    The integration of pHLA binding and pHLA-TCR analysis effectively improves the precision of insilico neoantigen prioritization, potentially enhancing personalized immunotherapies for colorectal cancer.
    1. Immunology and Inflammation

    Convergence, plasticity, and tissue residence of regulatory T cell response via TCR repertoire prism

    Tatyana O Nakonechnaya, Bruno Moltedo ... Dmitriy M Chudakov
    Digitalized TCR repertoire-based view on antigenic specificity, plasticity, and tissue residence of regulatory T cells.
    1. Computational and Systems Biology
    2. Immunology and Inflammation

    T cell receptor repertoires of mice and humans are clustered in similarity networks around conserved public CDR3 sequences

    Asaf Madi, Asaf Poran ... Nir Friedman
    A new perception of the organization of T-cell receptor repertoires in mice and humans, based on high-throughput sequencing and CDR3 sequence similarity, indicates hubs of cross-species public sequences forming evolutionary conserved 'foci of attention' of T cell immunity.
    1. Computational and Systems Biology
    2. Immunology and Inflammation

    TCR meta-clonotypes for biomarker discovery with tcrdist3 enabled identification of public, HLA-restricted clusters of SARS-CoV-2 TCRs

    Koshlan Mayer-Blackwell, Stefan Schattgen ... Andrew Fiore-Gartland
    Distance-based TCR analysis enables grouping of biochemically similar clonotypes into meta-clonotypes that have increased publicity, and therefore statistical power, for population-level detection of antigen-specific T cells in infection and vaccination.
    1. Immunology and Inflammation

    SLAM/SAP signaling regulates discrete γδ T cell developmental checkpoints and shapes the innate-like γδ TCR repertoire

    Somen K Mistri, Brianna M Hilton ... Jonathan E Boyson
    The SLAM/SAP signaling pathway regulates both γδ T cell developmental programming and γδ/αβ T cell lineage commitment.
    1. Computational and Systems Biology
    2. Immunology and Inflammation

    Deep generative models for T cell receptor protein sequences

    Kristian Davidsen, Branden J Olson ... Frederick A Matsen IV
    Deep learning improves estimation of T cell receptor cohort frequencies and learns the rules of VDJ recombination, potentially making it helpful for vaccine design.

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