129 results found
    1. Computational and Systems Biology
    2. Neuroscience

    NetPyNE, a tool for data-driven multiscale modeling of brain circuits

    Salvador Dura-Bernal et al.
    The NetPyNE software tool provides a framework to efficiently develop, simulate, optimize and analyze experimentally grounded neural models spanning the molecular, cellular and circuit scales.
    1. Cell Biology
    2. Computational and Systems Biology

    TissueMiner: A multiscale analysis toolkit to quantify how cellular processes create tissue dynamics

    Raphaël Etournay et al.
    A computational framework called TissueMiner, complete with tutorials, will allow a wide range of users to perform quantitative multiscale analysis of tissue morphogenesis.
    1. Cell Biology
    2. Physics of Living Systems

    Principles of self-organization and load adaptation by the actin cytoskeleton during clathrin-mediated endocytosis

    Matthew Akamatsu et al.
    An experimentally constrained multiscale mathematical model predicts that branched actin networks self-organize at endocytic sites and bend to produce force, which was verified with cryo-electron tomography of intact cells.
    1. Neuroscience

    Brain signatures of a multiscale process of sequence learning in humans

    Maxime Maheu et al.
    Evidence for multiple brain systems for sequence processing involving statistical inferences at multiple scales.
    1. Neuroscience

    Synaptic input sequence discrimination on behavioral timescales mediated by reaction-diffusion chemistry in dendrites

    Upinder Singh Bhalla
    The powerful computational operation of sequence recognition on behavioral timescales of approximately 1 s may emerge from synaptic activity-triggered build-up of biochemical waves in short 20 micron zones on dendrites.
    1. Computational and Systems Biology
    2. Neuroscience

    Discovering and deciphering relationships across disparate data modalities

    Joshua T Vogelstein et al.
    Multiscale Graph Correlation, an interpretable hypothesis test with strong theoretical guarantees for discerning relationships in complex data, requires about half the sample size as other methods, whilst maintaining computational tractability.
    1. Computational and Systems Biology
    2. Neuroscience

    From single neurons to behavior in the jellyfish Aurelia aurita

    Fabian Pallasdies et al.
    A multiscale computational nerve net model describes how the activity of individual neurons controls the swimming motion of a jellyfish in its hydrodynamic environment.
    1. Computational and Systems Biology
    2. Physics of Living Systems

    Physical limits of flow sensing in the left-right organizer

    Rita R Ferreira et al.
    Large-scale in vivo imaging of the zebrafish left-right organizer (Kupffer's vesicle) combined with fluid dynamics calculations allows to quantitatively test the possible flow detection mechanisms and supports the flow transport of chemical signals as the mechanism of side determination.
    1. Cancer Biology

    Philosophy of Biology: Characterizing causality in cancer

    Elena Rondeau et al.
    Ideas about causality from philosophy can help scientists to better understand how cancerous tumors grow and spread in the body.
    1. Physics of Living Systems
    2. Structural Biology and Molecular Biophysics

    Efficient conversion of chemical energy into mechanical work by Hsp70 chaperones

    Salvatore Assenza et al.
    A multiscale modeling approach reveals how the energy from ATP hydrolysis is used by Hsp70 chaperones to remodel the conformation of their substrates through a novel force-generating mechanism.

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