Browse our latest Computational and Systems Biology articles

Page 63 of 123
    1. Cell Biology
    2. Computational and Systems Biology

    Artistoo, a library to build, share, and explore simulations of cells and tissues in the web browser

    Inge MN Wortel, Johannes Textor
    By letting users build interactive simulations directly in a web browser, Artistoo unlocks new ways to communicate, teach, and collaborate in computational biology research.
    1. Computational and Systems Biology
    2. Medicine

    Computational modeling identifies embolic stroke of undetermined source patients with potential arrhythmic substrate

    Savannah F Bifulco, Griffin D Scott ... Patrick M Boyle
    In models reconstructed from MRI scans of patients with embolic stroke of undetermined source, computational simulations reveal that fibrosis has the intrinsic capacity to sustain arrhythmia drivers when subjected to triggered activity known to exist in patients with atrial fibrillation.
    1. Computational and Systems Biology
    2. Evolutionary Biology

    Mapping single-cell atlases throughout Metazoa unravels cell type evolution

    Alexander J Tarashansky, Jacob M Musser ... Bo Wang
    Mapping single-cell atlases throughout Metazoa systematically characterizes cell type diversity and the evolution of their associated gene expression programs.
    1. Chromosomes and Gene Expression
    2. Computational and Systems Biology

    Simple biochemical features underlie transcriptional activation domain diversity and dynamic, fuzzy binding to Mediator

    Adrian L Sanborn, Benjamin T Yeh ... Roger D Kornberg
    Transcriptional activation domains achieve rapid, dynamic, specific interaction with Mediator through binding of an unstructured peptide to multiple hydrophobic surfaces without particular amino acid side chain interactions.
    1. Computational and Systems Biology

    A convolutional neural network for the prediction and forward design of ribozyme-based gene-control elements

    Calvin M Schmidt, Christina D Smolke
    Machine learning has been applied to develop predictive models for designing RNA gene-control elements with targeted gene-regulatory activities.
    1. Computational and Systems Biology
    2. Neuroscience

    Trading mental effort for confidence in the metacognitive control of value-based decision-making

    Douglas G Lee, Jean Daunizeau
    Intra-individual variability in choice, response time, subjective effort, confidence, and choice-induced preference change and certainty gain is explained by a cost–benefit model of cognitive resource allocation.
    1. Computational and Systems Biology
    2. Stem Cells and Regenerative Medicine

    The biphasic and age-dependent impact of klotho on hallmarks of aging and skeletal muscle function

    Zachary Clemens, Sruthi Sivakumar ... Fabrisia Ambrosio
    Transcriptomic analysis using a novel information-based network entropy approach provides mechanistic insights into the ability of Klotho to successfully ameliorate age-related sarcopenia in old mice, but not oldest-old mice.
    1. Computational and Systems Biology
    2. Immunology and Inflammation

    ImmunoCluster provides a computational framework for the nonspecialist to profile high-dimensional cytometry data

    James W Opzoomer, Jessica A Timms ... Shahram Kordasti
    ImmunoCluster permits nonspecialist users to interrogate liquid and imaging mass, and flow cytometry datasets, resolving novel layers of cellular heterogeneity and insight, as well as producing publishable outputs and figures.
    1. Computational and Systems Biology
    2. Immunology and Inflammation

    Competitive binding of STATs to receptor phospho-Tyr motifs accounts for altered cytokine responses

    Stephan Wilmes, Polly-Anne Jeffrey ... Ignacio Moraga
    IL-27 exerts differential activation of STAT1 and STAT3 via IL-27Ra and GP130, respectively, leading to a kinetic decoupling of its gene expression program, which contributes to tune its immuno-modulatory activities.
    1. Computational and Systems Biology

    A cross-sectional study of functional and metabolic changes during aging through the lifespan in male mice

    Michael A Petr, Irene Alfaras ... Rafael de Cabo
    A comprehensive cross-sectional assessment reveals functional decline in mice consistent with increased energetic cost of physical activity with age through metabolic rewiring in multiple organs.