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Time-dependent material properties of aging biomolecular condensates from different viscoelasticity measurements in molecular dynamics simulations
Biomolecular condensates are important contributors to the internal organization of the cell
material. While initially described as liquid-like droplets, the term biomolecular condensates …
material. While initially described as liquid-like droplets, the term biomolecular condensates …
Progressive polymer deformation induced by polar activity and the influence of inertia
Polar activity is shown here to induce a progressive local deformation of linear polymer
chains, making a clear distinction between head and tail, while the overall chain …
chains, making a clear distinction between head and tail, while the overall chain …
Chemically Informed Coarse-Graining of Electrostatic Forces in Charge-Rich Biomolecular Condensates
A R. Tejedor, A Aguirre Gonzalez… - ACS Central …, 2024 - ACS Publications
Biomolecular condensates composed of highly charged biomolecules, such as DNA, RNA,
chromatin, and nucleic-acid binding proteins, are ubiquitous in the cell nucleus. The …
chromatin, and nucleic-acid binding proteins, are ubiquitous in the cell nucleus. The …
Delayed excitations induce polymer loo** and coherent motion
We consider inhomogeneous polymers driven by energy-consuming active processes which
encode temporal patterns of athermal kicks. We find that such temporal excitation programs …
encode temporal patterns of athermal kicks. We find that such temporal excitation programs …
Benchmarking residue-resolution protein coarse-grained models for simulations of biomolecular condensates
A Feito, I Sanchez-Burgos, I Tejero… - PLOS Computational …, 2025 - journals.plos.org
Intracellular liquid–liquid phase separation (LLPS) of proteins and nucleic acids is a
fundamental mechanism by which cells compartmentalize their components and perform …
fundamental mechanism by which cells compartmentalize their components and perform …
Spiral and helical formation of passive and active polymers with stiffness heterogeneity in a spherical cavity
R Yan, S Liu, N Zhao - Soft Matter, 2025 - pubs.rsc.org
Biomolecules usually adopt ubiquitous circular structures which are important for their
functionality. Based on three-dimensional Langevin dynamics simulations, we investigate …
functionality. Based on three-dimensional Langevin dynamics simulations, we investigate …
Generalized Langevin equation for a tagged monomer in a Gaussian semiflexible polymer
In this study, we present a comprehensive analysis of the motion of a tagged monomer
within a Gaussian semiflexible polymer model. We carefully derived the generalized …
within a Gaussian semiflexible polymer model. We carefully derived the generalized …
Collective behavior of active filaments with homogeneous and heterogeneous stiffness
C Zhao, R Yan, N Zhao - The Journal of Chemical Physics, 2024 - pubs.aip.org
The collective dynamics of active biopolymers is crucial for many processes in life, such as
cellular motility, intracellular transport, and division. Recent experiments revealed …
cellular motility, intracellular transport, and division. Recent experiments revealed …
DROPP: Structure-Aware PCA for Ordered Data: A General Method and its Applications in Climate Research and Molecular Dynamics
Ordered data arises in many areas, eg, in molec-ular dynamics and other spatial-temporal
trajectories. While data points that are close in this order are related, common dimensionality …
trajectories. While data points that are close in this order are related, common dimensionality …
Phase behaviour of hnRNPA1 low-complexity domain mutants described by different sequence-dependent models
Intracellular liquid-liquid phase separation (LLPS) of proteins and nucleic acids represents a
fundamental mechanism by which cells compartmentalise their material and fulfill biological …
fundamental mechanism by which cells compartmentalise their material and fulfill biological …