Browse our latest Computational and Systems Biology articles

Page 25 of 125
    1. Computational and Systems Biology

    Genome-scale annotation of protein binding sites via language model and geometric deep learning

    Qianmu Yuan, Chong Tian, Yuedong Yang
    Integration of language model and geometric deep learning enables accurate and efficient genome-scale annotation of comprehensive protein-ligand binding sites.
    1. Computational and Systems Biology
    2. Physics of Living Systems

    The French flag problem revisited: Creating robust and tunable axial patterns without global signaling

    Stephan Kremser, Gabriel Vercelli, Ulrich Gerland
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Cell Biology
    2. Computational and Systems Biology

    Neural network emulation of the human ventricular cardiomyocyte action potential for more efficient computations in pharmacological studies

    Thomas Grandits, Christoph M Augustin ... Alexander Jung
    Neural networks can emulate normal and abnormal human ventricular action potentials accurately and potentially much faster than regular simulations paving the way for more efficient quantitative systems pharmacology studies.
    1. Computational and Systems Biology
    2. Neuroscience

    Disrupting abnormal neuronal oscillations with adaptive delayed feedback control

    Domingos Leite de Castro, Miguel Aroso ... Paulo Aguiar
    Adaptive delayed feedback control is presented as a new real-time, closed-loop control algorithm for neurostimulation which can disrupt oscillations and reduce network synchrony in neuronal populations.
    1. Computational and Systems Biology

    Protein language model-embedded geometric graphs power inter-protein contact prediction

    Yunda Si, Chengfei Yan
    Integrating multiple protein language models using protein geometric graphs can dramatically improve the model performance for predicting the contacting residue pairs between interacting proteins.
    1. Cancer Biology
    2. Computational and Systems Biology

    Unveiling the signaling network of FLT3-ITD AML improves drug sensitivity prediction

    Sara Latini, Veronica Venafra ... Francesca Sacco
    Acute myeloid leukemia-specific predictive logic models reveal new therapeutic targets involved in cancer resistance mechanisms paving the way for personalized precision medicine.
    1. Chromosomes and Gene Expression
    2. Computational and Systems Biology

    voyAGEr, a free web interface for the analysis of age-related gene expression alterations in human tissues

    Arthur L Schneider, Rita Martins-Silva ... Nuno L Barbosa-Morais
    voyAGEr is an online platform that facilitates the exploration of age-related gene expression dynamics in human tissues, allowing users to analyse tissue- and sex-specific changes alongside donor medical histories.
    1. Cancer Biology
    2. Computational and Systems Biology

    A novel machine learning algorithm selects proteome signature to specifically identify cancer exosomes

    Bingrui Li, Fernanda G Kugeratski, Raghu Kalluri
    A robust machine learning diagnostic platform utilizing exosome proteins to distinguish various human cancers in diverse biological fluids.
    1. Computational and Systems Biology
    2. Immunology and Inflammation

    Transformer-based spatial–temporal detection of apoptotic cell death in live-cell imaging

    Alain Pulfer, Diego Ulisse Pizzagalli ... Santiago Fernandez Gonzalez
    ADeS, a novel deep learning approach for apoptosis detection, achieves 98% accuracy in vitro and in vivo while providing unprecedented insights into the spatial–temporal foundation of cell death.
    1. Computational and Systems Biology

    Metabolic model-based ecological modeling for probiotic design

    James D Brunner, Nicholas Chia
    Genome-scale metabolic models can be used to predict the engraftment of probiotics.