Browse our latest Computational and Systems Biology articles

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    1. Computational and Systems Biology
    2. Immunology and Inflammation

    Cytotoxic T cells swarm by homotypic chemokine signalling

    Jorge Luis Galeano Niño, Sophie V Pageon ... Maté Biro
    Killer T cells swarm around tumour targets by accelerating the recruitment of distant T cells, which upon arrival and target engagement augment the chemotactic signal in a positive feedback loop.
    1. Computational and Systems Biology
    2. Genetics and Genomics

    A rat epigenetic clock recapitulates phenotypic aging and co-localizes with heterochromatin

    Morgan Levine, Ross A McDevitt ... Luigi Ferrucci
    The first epigenetic clock for rats was developed and revealed to reflect phenotypic aging and captured the effects of longevity interventions.
    1. Computational and Systems Biology
    2. Evolutionary Biology

    Evolution of multicellularity by collective integration of spatial information

    Enrico Sandro Colizzi, Renske MA Vroomans, Roeland MH Merks
    Selection for undifferentiated multicellularity emerges in an evolutionary cell-based model because a collective of cells performs chemotaxis better than single cells in a noisy environment.
    1. Computational and Systems Biology
    2. Structural Biology and Molecular Biophysics

    Investigating the trade-off between folding and function in a multidomain Y-family DNA polymerase

    Xiakun Chu, Zucai Suo, Jin Wang
    The physical interaction network encoded in the multi-domain protein native structure handles the trade-off between the fast, stable folding and the efficient, reliable function.
    1. Computational and Systems Biology
    2. Microbiology and Infectious Disease

    Drivers and sites of diversity in the DNA adenine methylomes of 93 Mycobacterium tuberculosis complex clinical isolates

    Samuel J Modlin, Derek Conkle-Gutierrez ... Faramarz Valafar
    Fully assembled DNA methylomes from phylogeographically diverse clinical Mycobacterium tuberculosis complex isolates reveals 'intercellular mosaic methylation' as a source of epigenetic diversity.
    1. Computational and Systems Biology
    2. Neuroscience

    Training deep neural density estimators to identify mechanistic models of neural dynamics

    Pedro J Gonçalves, Jan-Matthis Lueckmann ... Jakob H Macke
    Deep neural networks can be trained to automatically find mechanistic models which quantitatively agree with experimental data, providing new opportunities for building and visualizing interpretable models of neural dynamics.
    1. Computational and Systems Biology

    A large accessory protein interactome is rewired across environments

    Zhimin Liu, Darach Miller ... Sasha F Levy
    A massively multiplexed multi-condition screen shows that protein interactomes are larger than previously thought and contain highly dynamic regions that reorganize to drive or respond to cellular changes.
    1. Chromosomes and Gene Expression
    2. Computational and Systems Biology

    Caenorhabditis elegans methionine/S-adenosylmethionine cycle activity is sensed and adjusted by a nuclear hormone receptor

    Gabrielle E Giese, Melissa D Walker ... Albertha JM Walhout
    Metabolic activity of the methionine/S-adenosylmethionine cycle is sensed and transcriptionally regulated by a nuclear hormone receptor in Caenorhabditis elegans in order to maintain metabolic homeostasis in a tightly controlled regime.
    1. Cancer Biology
    2. Computational and Systems Biology

    Dynamics of nevus development implicate cell cooperation in the growth arrest of transformed melanocytes

    Rolando Ruiz-Vega, Chi-Fen Chen ... Arthur D Lander
    Spontaneous growth arrest of transformed melanocytes (resulting in benign “moles”) does not result from cell-autonomous oncogene-induced senescence, but can be explained by collective mechanisms used in normal tissue size control.
    1. Computational and Systems Biology
    2. Developmental Biology

    Topology-driven protein-protein interaction network analysis detects genetic sub-networks regulating reproductive capacity

    Tarun Kumar, Leo Blondel, Cassandra G Extavour
    Regulatory networks of genes controlling different aspects of insect reproduction have been identified by a systems-level analysis of quantitative phenotypic information obtained from the loss of individual cell signaling genes.