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    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. Immunology and Inflammation
    2. Physics of Living Systems

    Quantitative modeling of the effect of antigen dosage on B-cell affinity distributions in maturating germinal centers

    Marco Molari, Klaus Eyer ... Rémi Monasson
    Detailed and inferred model reproduces B-cell affinity distributions measured in mice immunized according to various protocols and explains non-monotonous effects of antigen dosage on maturation.
    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

    Primary and secondary anti-viral response captured by the dynamics and phenotype of individual T cell clones

    Anastasia A Minervina, Mikhail V Pogorelyy ... Aleksandra M Walczak
    High-throughput clonal tracking quantifies intrinsic differences between primary and secondary T cell response.
    1. Chromosomes and Gene Expression
    2. Immunology and Inflammation

    Polypyrimidine tract-binding proteins are essential for B cell development

    Elisa Monzón-Casanova, Louise S Matheson ... Martin Turner
    The RNA-binding protein polypyrimidine tract-binding protein 1 (PTBP1) is essential for B cell development at the pro-B cell stage where it suppresses S-phase entry and promotes progression through mitosis.
    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.
    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. Computational and Systems Biology
    2. Immunology and Inflammation

    Lineage tracing of human B cells reveals the in vivo landscape of human antibody class switching

    Felix Horns, Christopher Vollmers ... Stephen R Quake
    A comprehensive map of patterns of class switching reveals how antibodies of every class are created in humans.