Browse our latest Computational and Systems Biology articles

Page 65 of 125
    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.
    1. Computational and Systems Biology
    2. Ecology

    TRex, a fast multi-animal tracking system with markerless identification, and 2D estimation of posture and visual fields

    Tristan Walter, Iain D Couzin
    Being fast, memory efficient, easy to use, and with powerful integrated tools, TRex will lower barriers of entry into, and enable more ambitious approaches to, the quantitative study of behavior.
    1. Computational and Systems Biology

    Proteomic and transcriptomic profiling reveal different aspects of aging in the kidney

    Yuka Takemon, Joel M Chick ... Ron Korstanje
    mRNA profiling alone provides an incomplete picture of molecular aging and examination of changes in proteins is essential to understand aging processes that are not transcriptionally regulated.
    1. Computational and Systems Biology
    2. Microbiology and Infectious Disease

    Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3

    Francesco Beghini, Lauren J McIver ... Nicola Segata
    The bioBakery 3 platform enables improved, integrated, and strain-level analysis of microbial communities from large-scale meta-omic data.
    1. Computational and Systems Biology

    Associations of topic-specific peer review outcomes and institute and center award rates with funding disparities at the National Institutes of Health

    Michael S Lauer, Jamie Doyle ... Deepshikha Roychowdhury
    An analysis of peer review and funding outcomes of NIH research applications shows that funding disparities of topics preferred by African American Black investigators are not due to peer review preferences or biases.