Browse our latest Computational and Systems Biology articles

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    1. Ecology
    2. Computational and Systems Biology

    vassi – verifiable, automated scoring of social interactions in animal groups

    Paul Nührenberg, Aneesh PH Bose, Alex Jordan
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Incomplete
    1. Structural Biology and Molecular Biophysics
    2. Computational and Systems Biology

    Compound Mutations in the Abl1 Kinase Cause Inhibitor Resistance by Shifting DFG Flip Mechanisms and Relative State Populations

    Gabriel Monteiro da Silva, Kyle Lam ... Brenda M Rubenstein
    Revised
    Reviewed Preprint v2
    Updated
    • Useful
    • Incomplete
    1. Computational and Systems Biology

    OpenSpliceAI provides an efficient modular implementation of SpliceAI enabling easy retraining across nonhuman species

    Kuan-Hao Chao, Alan Mao ... Mihaela Pertea
    OpenSpliceAI is an open, retrainable framework for splice site prediction that enables rapid, memory-efficient, cross-species analyses at scale with accuracy comparable to SpliceAI.
    1. Neuroscience
    2. Computational and Systems Biology

    Where is the melody? Spontaneous attention orchestrates melody formation during polyphonic music listening

    Martin M Winchester, Kevin Reynolds ... Giovanni M Di Liberto
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Incomplete
    1. Computational and Systems Biology
    2. Physics of Living Systems

    Non-equilibrium strategies enabling ligand specificity by signaling receptors

    Andrew Goetz, Jeremy Barrios ... Purushottam D Dixit
    Non-equilibrium thermodynamics allows signaling networks to signal downstream of certain ligands but avoid signaling from others.
    1. Computational and Systems Biology
    2. Neuroscience

    Homophilic wiring principles underpin neuronal network topology in vitro

    Danyal Akarca, Alexander WE Dunn ... Manuel Schröter
    Functional connectivity in rodent and human neuronal cultures is best explained by homophilic wiring rules, in which neurons preferentially form connections depending on spatial proximity and shared connectivity patterns, suggesting a unifying principle across scales.
    1. Computational and Systems Biology
    2. Medicine

    Critique of impure reason: Unveiling the reasoning behaviour of medical large language models

    Shamus Zi Yang Sim, Tyrone Chen
    A survey of reasoning behaviour in medical large language models uncovers emerging trends, highlights open challenges, and introduces theoretical frameworks that enhance reasoning behaviour transparency, ultimately fostering greater trust among clinicians, developers, and patients in their deployment.
    1. Computational and Systems Biology

    Subtle methodological variations substantially impact correlation test results in ecological time series

    Caroline Cannistra, Linh Hoang ... Wenying Shou
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Solid
    1. Computational and Systems Biology

    Twist is the key to the gating of mechanosensitive ion channel NOMPC

    Jingze Duan, Chen Song
    Rotation of the transient receptor potential (TRP) domain appears to be a universal mechanism for gating of the TRP channel family, including the mechanosensitive ion channel NOMPC.
    1. Structural Biology and Molecular Biophysics
    2. Computational and Systems Biology

    Decoding molecular mechanisms for loss-of-function variants in the human proteome

    Matteo Cagiada, Nicolas Jonsson, Kresten Lindorff-Larsen
    Not revised
    Reviewed Preprint v1
    • Valuable
    • Convincing
    • Solid
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