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    1. Computational and Systems Biology

    Passive shaping of intra- and intercellular m6A dynamics via mRNA metabolism

    David Dierks, Ran Shachar ... Schraga Schwartz
    A quantitative model explains intra- and intercellular changes in m6A gene methylation as passive consequences of mRNA metabolism.
    1. Computational and Systems Biology
    2. Structural Biology and Molecular Biophysics

    Structural characterization and dynamics of AdhE ultrastructures from Clostridium thermocellum show a containment strategy for toxic intermediates

    Samantha J Ziegler, Brandon C Knott ... Yannick J Bomble
    Understanding the dynamics of AdhE enzymes is essential to be able to control the metabolic and energy fluxes in microorganisms used to produce biofuels and biochemicals.
    1. Computational and Systems Biology
    2. Immunology and Inflammation

    Tissue-resident memory CD4+ T cells are sustained by site-specific levels of self-renewal and continuous replacement

    Jodie Chandler, M Elise Bullock ... Andrew J Yates
    Memory CD4 T cells within tissues are highly dynamic, and their continuous replacement may erode immunity to previous infections.
    1. Computational and Systems Biology
    2. Physics of Living Systems

    Designing biochemical circuits with tree search

    Pranav S Bhamidipati, Matthew Thomson
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Convincing
    1. Computational and Systems Biology
    2. Neuroscience

    Evidence from pupillometry, fMRI, and RNN modelling shows that gain neuromodulation mediates task-relevant perceptual switches

    Gabriel Wainstein, Christopher J Whyte ... James M Shine
    Phasic neuromodulatory bursts actively drive adaptive perceptual updating by triggering large-scale brain network reconfigurations, as demonstrated through integrated pupillometry, fMRI, and computational modelling.
    1. Computational and Systems Biology
    2. Neuroscience

    A common alteration in effort-based decision-making in apathy, anhedonia, and late circadian rhythm

    Sara Z Mehrhof, Camilla L Nord
    Individuals with a late circadian rhythm show the same deficits in motivational decision-making as those with neuropsychiatric symptoms, but only when tested in the morning.
    1. Computational and Systems Biology

    Artificial intelligence driven tumor risk stratification from single-cell transcriptomics using phenotype algebra

    Namrata Bhattacharya, Anja Rockstroh ... Debarka Sengupta
    SCellBOW is a language model-based scRNA-seq analysis method that identifies malignant cell subpopulations and infers marker-free survival risks using transfer learning.
    1. Computational and Systems Biology

    A mathematical model that predicts human biological age from physiological traits identifies environmental and genetic factors that influence aging

    Sergiy Libert, Alex Chekholko, Cynthia Kenyon
    A model was developed to predict human biological age from physiological traits, enabling the prediction of future health and mortality and the identification of genetic loci that influence aging.
    1. Genetics and Genomics
    2. Computational and Systems Biology

    Systematic analysis of transcription factor combinatorial binding uncovers TEAD1 as an antagonist of tissue-specific transcription factors in human organogenesis

    Araceli Garcia-Mora, Joshua Mallen ... Nicoletta Bobola
    Not revised
    Reviewed Preprint v1
    • Important
    • Solid
    • Convincing
    1. Medicine
    2. Computational and Systems Biology

    Calibration and validation strategy for electromechanical cardiac digital twins

    Zhinuo Jenny Wang, Maxx Holmes ... Blanca Rodriguez
    Not revised
    Reviewed Preprint v1
    • Important
    • Solid
    • Incomplete
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