Browse our latest Computational and Systems Biology articles

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    1. Computational and Systems Biology
    2. Epidemiology and Global Health

    The intractable challenge of evaluating cattle vaccination as a control for bovine Tuberculosis

    Andrew James Kerr Conlan et al.
    Natural transmission experiments should be prioritised over risky and expensive field trials, in order to establish the impact of cattle vaccination on the transmission of bovine Tuberculosis.
    1. Chromosomes and Gene Expression
    2. Computational and Systems Biology

    Computational prediction of CTCF/cohesin-based intra-TAD loops that insulate chromatin contacts and gene expression in mouse liver

    Bryan J Matthews, David J Waxman
    Certain types of 3D chromatin loops are easy to predict from existing or easily obtainable 2D information, which benefits gene expression studies in tissues/cells/organisms without extensive pre-existing 3D information.
    1. Computational and Systems Biology
    2. Human Biology and Medicine

    The MR-Base platform supports systematic causal inference across the human phenome

    Gibran Hemani et al.
    Compiling public datasets into a single, centralised repository and linking directly to analytical software completely transforms the scale and scope of causal inference across the phenome.
    1. Computational and Systems Biology
    2. Structural Biology and Molecular Biophysics

    Free-energy simulations reveal molecular mechanism for functional switch of a DNA helicase

    Wen Ma et al.
    Integration of structural bioinformatics and free-energy simulations reveals how a helicase switches its function from unwinding to rezipping DNA, during which a key metastable conformation is predicted and verified by single-molecule measurements.
    1. Computational and Systems Biology
    2. Neuroscience

    Post-decision biases reveal a self-consistency principle in perceptual inference

    Long Luu, Alan A Stocker
    Humans are biased in their assessment of sensory information by their own preceding categorical judgment in an attempt to remain self-consistent.
    1. Computational and Systems Biology
    2. Immunology and Inflammation

    Computer-guided design of optimal microbial consortia for immune system modulation

    Richard R Stein et al.
    A computational method is presented that quantifies the effect that specific bacteria in the gut have on the immune system and guides the design of therapeutically potent microbial consortia to cure auto-immune disease.
    1. Computational and Systems Biology
    2. Developmental Biology

    The transcriptomic and epigenetic map of vascular quiescence in the continuous lung endothelium

    Katharina Schlereth et al.
    The acquisition of vascular quiescence during transition to adulthood is driven by distinct transcriptional and epigenetic programs of pro- and anti-angiogenic genes, with the most prominent effect on the suppression of TGFß family signaling.
    1. Cell Biology
    2. Computational and Systems Biology

    Integrating images from multiple microscopy screens reveals diverse patterns of change in the subcellular localization of proteins

    Alex X Lu et al.
    100,000s of images from different growth conditions and genetic backgrounds can be integrated into proteome-scale analysis.
    1. Computational and Systems Biology
    2. Structural Biology and Molecular Biophysics

    Linking time-series of single-molecule experiments with molecular dynamics simulations by machine learning

    Yasuhiro Matsunaga, Yuji Sugita
    A general machine learning scheme for integrating time-series data from single-molecule experiments and molecular dynamics simulations is proposed and successfully demonstrated for the folding dynamics of the WW domain.
    1. Computational and Systems Biology
    2. Microbiology and Infectious Disease

    Functional genomics of lipid metabolism in the oleaginous yeast Rhodosporidium toruloides

    Samuel T Coradetti et al.
    Using barcoded mutagenesis and a high-throughput genetic screen results in the identification of 150 genes that affect lipid accumulation in a non-model yeast system.