Browse our latest Computational and Systems Biology articles

Page 23 of 127
    1. Computational and Systems Biology

    A three filament mechanistic model of musculotendon force and impedance

    Matthew Millard, David W Franklin, Walter Herzog
    Benchmark simulations show that the VEXAT muscle model is more accurate than a Hill-type muscle model at mimicking the response of biological muscle to length changes great and small.
    1. Computational and Systems Biology
    2. Evolutionary Biology

    Distinguishing mutants that resist drugs via different mechanisms by examining fitness tradeoffs

    Kara Schmidlin, Sam Apodaca ... Kerry Geiler-Samerotte
    Nearly a thousand diverse adaptive mutants converge into a handful of groups for which fitness responds the same way to environmental change.
    1. Computational and Systems Biology
    2. Immunology and Inflammation

    ImmCellTyper facilitates systematic mass cytometry data analysis for deep immune profiling

    Jing Sun, Desmond Choy ... Shahram Kordasti
    ImmCellTyper enhances CyTOF data analysis by combining expert biological knowledge with advanced clustering tools to provide an accurate, comprehensive, and user-friendly solution for high-dimensional immune profiling.
    1. Computational and Systems Biology
    2. Ecology

    A rapid phylogeny-based method for accurate community profiling of large-scale metabarcoding datasets

    Lenore Pipes, Rasmus Nielsen
    Tronko provides a scalable solution for accurate taxonomic assignment for large-scale metabarcoding datasets by overcoming the speed and memory limitations of previous phylogenetic placement methods.
    1. Computational and Systems Biology
    2. Structural Biology and Molecular Biophysics

    MDverse, shedding light on the dark matter of molecular dynamics simulations

    Johanna KS Tiemann, Magdalena Szczuka ... Pierre Poulain
    Identifying, indexing, and annotating molecular dynamics simulations open data is essential to ensure their proper reuse.
    1. Computational and Systems Biology

    Alleviating cell-free DNA sequencing biases with optimal transport

    Antoine Passemiers, Tatjana Jatsenko ... Yves Moreau
    Not revised
    Reviewed Preprint v1
    • Useful
    • Incomplete
    1. Computational and Systems Biology

    Convergent evolution in silico reveals shape and dynamic principles of directed locomotion

    Renata B Biazzi, André Fujita, Daniel Y Takahashi
    Revised
    Reviewed Preprint v2
    Updated
    • Important
    • Incomplete
    1. Cell Biology
    2. Computational and Systems Biology

    circHIPK3 nucleates IGF2BP2 and functions as a competing endogenous RNA

    Trine Line Hauge Okholm, Andreas Bjerregaard Kamstrup ... Christian Kroun Damgaard
    A dysregulated circular RNA in bladder cancer controls oncogenic pathways by tethering specific RNA-binding proteins, which in turn inhibits their normal functions.
    1. Cell Biology
    2. Computational and Systems Biology

    Multi-omic analysis of bat versus human fibroblasts reveals altered central metabolism

    N Suhas Jagannathan, Javier Yu Peng Koh ... Lisa Tucker-Kellogg
    To investigate why bats are long-lived and cancer-resistant, multi-omic data from bat and human cells was analyzed using computational flux modeling, suggesting dysregulation of succinate-fumarate dynamics and an ischemic-like basal metabolism in bat cells.