Publications by authors named "Ali Farnudi"

Continuum models like the Helfrich Hamiltonian are widely used to describe fluid bilayer vesicles. Here we study the molecular dynamics compatible dynamics of the vertices of two-dimensional meshes representing the bilayer, whose in-plane motion is only weakly constrained. We show (i) that Jülicher's discretization of the curvature energy offers vastly superior robustness for soft meshes compared to the commonly employed expression by Gommper and Kroll and (ii) that for sufficiently soft meshes, the typical behavior of fluid bilayer vesicles can emerge even if the mesh connectivity remains fixed throughout the simulations.

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Article Synopsis
  • Nanoparticles (NPs) interact with biomolecules in biological environments, forming a biomolecular corona (BC) that affects their biological identity and clinical applications.
  • Understanding the BC’s true nature and its association with NPs is crucial for their safe and effective use in medicine.
  • By using advanced imaging techniques like cryo-electron microscopy and tomography, researchers have visualized the unique structures and distributions of biomolecules around polystyrene NPs, improving NP characterization and safety predictions.
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Insight into crumpling or compaction of one-dimensional objects is important for understanding biopolymer packaging and designing innovative technological devices. By compacting various types of wires in rigid confinements and characterizing the morphology of the resulting crumpled structures, here, we report how friction, plasticity and torsion enhance disorder, leading to a transition from coiled to folded morphologies. In the latter case, where folding dominates the crumpling process, we find that reducing the relative wire thickness counter-intuitively causes the maximum packing density to decrease.

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