Browse our latest Computational and Systems Biology articles

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    1. Cancer Biology
    2. Computational and Systems Biology

    shinyDepMap, a tool to identify targetable cancer genes and their functional connections from Cancer Dependency Map data

    Kenichi Shimada, John A Bachman ... Timothy J Mitchison
    shinyDepMap helps users explore the essentiality, selectivity, and function of the genes across hundreds of cancer cell lines and identify cancer drug targets.
    1. Computational and Systems Biology
    2. Structural Biology and Molecular Biophysics

    tRNA sequences can assemble into a replicator

    Alexandra Kühnlein, Simon A Lanzmich, Dieter Braun
    Rudimentary cross-catalytic replication can be established by double-hairpins of tRNA-like sequences, implying that replication and translation could have emerged along a common evolutionary trajectory.
    1. Computational and Systems Biology

    Emergence and propagation of epistasis in metabolic networks

    Sergey Kryazhimskiy
    Mutations that affect a metabolic network generically exhibit epistasis, which propagates to higher level phenotypes, such as fitness, carrying some information about the network’s topology.
    1. Computational and Systems Biology
    2. Medicine

    An integrative model of cardiometabolic traits identifies two types of metabolic syndrome

    Amit Frishberg, Inge van den Munckhof ... Irit Gat-Viks
    A novel type of metabolic syndrome, derived from computational modeling of phenotypic diversity in normal physiological settings, increases the risk of certain complex diseases.
    1. Computational and Systems Biology

    Shape deformation analysis reveals the temporal dynamics of cell-type-specific homeostatic and pathogenic responses to mutant huntingtin

    Lucile Megret, Barbara Gris ... Christian Neri
    Cell-type-specific molecular systems mapping reveals that striatal neuron degeneration in Huntington's disease is primarily driven by the loss of homeostatic responses.
    1. Computational and Systems Biology
    2. Medicine

    Individual variation in Achilles tendon morphology and geometry changes susceptibility to injury

    Nai-Hao Yin, Paul Fromme ... Helen L Birch
    Studying individual Achilles tendon geometry and interface sliding capacity may allow prediction of injury sites, and targeted training on specific muscle-(sub-)tendon units may boost beneficial outcomes for Achilles tendinopathy.
    1. Chromosomes and Gene Expression
    2. Computational and Systems Biology

    Global, cell non-autonomous gene regulation drives individual lifespan among isogenic C. elegans

    Holly E Kinser, Matthew C Mosley ... Zachary Pincus
    Expression of almost half of a library of fluorescent reporters distinguish long- from short-lived individual Caenorhabditis elegans, suggesting that organism-wide differences in gene expression drive future lifespan.
    1. Computational and Systems Biology

    Cycles, sources, and sinks: Conceptualizing how phosphate balance modulates carbon flux using yeast metabolic networks

    Ritu Gupta, Sunil Laxman
    A theoretical conceptualization of how phosphates control metabolic information flow and predictably regulate the metabolic state of the cell.
    1. Computational and Systems Biology

    Metage2Metabo, microbiota-scale metabolic complementarity for the identification of key species

    Arnaud Belcour, Clémence Frioux ... Anne Siegel
    Computational models and software connect metagenomics to metabolic network reconstruction, assess metabolic complementarity between species, and identify critical species associated to functions of interest.
    1. Computational and Systems Biology
    2. Medicine

    Reproducible analysis of disease space via principal components using the novel R package syndRomics

    Abel Torres-Espín, Austin Chou ... Adam R Ferguson
    A tutorial and open-source software to aid in reproducible disease pattern detection using principal component analysis.