1,970 results found
    1. Evolutionary Biology
    2. Physics of Living Systems

    Evolution of irreversible somatic differentiation

    Yuanxiao Gao, Hye Jin Park ... Yuriy Pichugin
    Irreversible differentiation into somatic cells is evolutionarily optimal if changing cell phenotype is costly, a few somatic cells already improve the organism's performance, and the organism is large enough.
    1. Computational and Systems Biology
    2. Genetics and Genomics

    Measuring the distribution of fitness effects in somatic evolution by combining clonal dynamics with dN/dS ratios

    Marc J Williams, Luis Zapata ... Trevor A Graham
    Measurement of the distribution of fitness effects of new mutations arising in human oesophagus and skin, via new mathematical theory linking dn/ds values and fitness coefficients.
    1. Cancer Biology

    A generalized theory of age-dependent carcinogenesis

    Andrii Rozhok, James DeGregori
    The multi-stage model of carcinogenesis requires the incorporation of aging-dependent somatic selection and life history-dependent evolution of species-specific tumor suppressor mechanisms in order to generalize carcinogenesis across tissues and species.
    1. Computational and Systems Biology
    2. Immunology and Inflammation

    Human B cell lineages associated with germinal centers following influenza vaccination are measurably evolving

    Kenneth B Hoehn, Jackson S Turner ... Steven H Kleinstein
    Influenza vaccination in humans stimulates novel B cell evolution that is detectable in germinal centers, but not the peripheral blood.
    1. Evolutionary Biology

    Measures of genetic diversification in somatic tissues at bulk and single-cell resolution

    Marius E Moeller, Nathaniel V Mon Père ... Weini Huang
    Single-cell and bulk sequencing data are combined through theoretical modeling to reveal the number of tissue-specific stem cells, mutation, and proliferation rates under sampling.
    1. Cancer Biology

    Use of signals of positive and negative selection to distinguish cancer genes and passenger genes

    László Bányai, Maria Trexler ... László Patthy
    In contrast with earlier conclusions, negative selection has a major role in cancer evolution.
    1. Cancer Biology
    2. Evolutionary Biology

    Cancers adapt to their mutational load by buffering protein misfolding stress

    Susanne Tilk, Judith Frydman ... Dmitri A Petrov
    High mutational load tumors mitigate effects from protein-damaging mutations by up-regulating complexes that buffer against misfolding stress, revealing therapeutic vulnerabilities and suggesting disrupted proteostasis is a hallmark of somatic evolution.
    1. Cell Biology
    2. Microbiology and Infectious Disease

    Distinct clonal evolution of B-cells in HIV controllers with neutralizing antibody breadth

    Deniz Cizmeci, Giuseppe Lofano ... Boris Julg
    Extended somatic hypermutation and clonal evolution associated with antibody neutralization breath in HIV controllers with low plasma viral loads provide promise for HIV vaccine development.
    1. Computational and Systems Biology
    2. Physics of Living Systems

    Combining mutation and recombination statistics to infer clonal families in antibody repertoires

    Natanael Spisak, Gabriel Athènes ... Aleksandra M Walczak
    HILARy is a new algorithm for grouping B-cell receptor sequences into distinct lineages, a crucial task to analyze immune response and memory through repertoire sequencing.
    1. Genetics and Genomics
    2. Cancer Biology

    Origins and functional consequences of somatic mitochondrial DNA mutations in human cancer

    Young Seok Ju, Ludmil B Alexandrov ... Peter J Campbell
    Identifying 1,907 mitochondrial somatic mutations from 1,675 tumor tissues provides new insights into the causes and effects of the mitochondrial genome mutations found in human cancers.

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