- A novel kinetic model to demonstrate the independent effects of ATP and ADP/Pi concentrations on sarcomere function
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Research Article | published 05 Aug 2024 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1012321
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- Graph topological transformations in space-filling cell aggregates
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Research Article | published 14 May 2024 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1012089
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- Landscape quantifies the intermediate state and transition dynamics in ecological networks
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Research Article | published 05 Jan 2024 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1011766
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- OpenABC enables flexible, simplified, and efficient GPU accelerated simulations of biomolecular condensates
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Research Article | published 11 Sep 2023 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1011442
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- Gentle and fast all-atom model refinement to cryo-EM densities via a maximum likelihood approach
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Research Article | published 31 Jul 2023 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1011255
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- Dynamic inference of cell developmental complex energy landscape from time series single-cell transcriptomic data
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Research Article | published 24 Jan 2022 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1009821
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- Rapid prediction of crucial hotspot interactions for icosahedral viral capsid self-assembly by energy landscape atlasing validated by mutagenesis
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Research Article | published 20 Oct 2020 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1008357
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- Epithelial organ shape is generated by patterned actomyosin contractility and maintained by the extracellular matrix
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Research Article | published 20 Aug 2020 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1008105
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- Electrostatic and bending energies predict staggering and splaying in nonmuscle myosin II minifilaments
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Research Article | published 06 Jul 2020 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1007801
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- Expression of quasi-equivalence and capsid dimorphism in the Hepadnaviridae
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Research Article | published 20 Apr 2020 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1007782
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- Dysregulated biodynamics in metabolic attractor systems precede the emergence of amyotrophic lateral sclerosis
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Research Article | published 15 Apr 2020 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1007773
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- Molecular recognition and packing frustration in a helical protein
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Research Article | published 19 Dec 2017 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1005909
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- Navigating in foldonia: Using accelerated molecular dynamics to explore stability, unfolding and self-healing of the β-solenoid structure formed by a silk-like polypeptide
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Research Article | published 22 Mar 2017 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1005446
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- Path Similarity Analysis: A Method for Quantifying Macromolecular Pathways
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Research Article | published 21 Oct 2015 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1004568
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- Stepwise Catalytic Mechanism via Short-Lived Intermediate Inferred from Combined QM/MM MERP and PES Calculations on Retaining Glycosyltransferase ppGalNAcT2
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Research Article | published 07 Apr 2015 PLOS Computational Biology
https://doi.org/10.1371/journal.pcbi.1004061
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