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A ubiquitous observation in cell biology is that the diffusive motion of macromolecules and organelles is anomalous, and a description simply based on the conventional diffusion equation with diffusion constants measured in dilute solution fails. This is commonly attributed to macromolecular crowding in the interior of cells and in cellular membranes,(More)
For a continuum percolation model, it has been shown recently that the crossover from pure subdiffusion to normal diffusion extends over five decades in time [1, 2]; in addition, the asymptotic behavior is slowly approached and the large corrections cannot simply be ignored. Thus, it is of general interest to develop a systematic description of universal(More)
The localization transition and the critical properties of the Lorentz model in three dimensions are investigated by computer simulations. We give a coherent and quantitative explanation of the dynamics in terms of continuum percolation theory and obtain an excellent matching of the critical density and exponents. Within a dynamic scaling ansatz(More)
The dynamic properties of a classical tracer particle in a random, disordered medium are investigated close to the localization transition. For Lorentz models obeying Newtonian and diffusive motion at the microscale, we have performed large-scale computer simulations, demonstrating that universality holds at long times in the immediate vicinity of the(More)
The localization transition and the critical properties of the Lorentz model in three dimensions are investigated by computer simulations. We give a coherent and quantitative explanation of the dynamics in terms of continuum percolation theory and obtain an excellent matching of the critical density and exponents. Within a dynamic scaling Ansatz(More)
Entangled networks of stiff biopolymers exhibit complex dynamic response, emerging from the topological constraints that neighboring filaments impose upon each other. We propose a class of reference models for entanglement dynamics of stiff polymers and provide a quantitative foundation of the tube concept for stiff polymers. For an infinitely thin needle(More)
The transport of an infinitely thin, hard rod in a random, dense array of point obstacles is investigated by molecular dynamics simulations. Our model mimics the sterically hindered dynamics in dense needle liquids. Transport becomes increasingly fast at higher densities, and we observe a power-law divergence of the diffusion coefficient with exponent 0.8.(More)
Modern graphics processing units (GPUs) provide impressive computing resources, which can be accessed conveniently through the CUDA programming interface. We describe how GPUs can be used to considerably speed up molecular dynamics (MD) simulations for system sizes ranging up to about 1 million particles. Particular emphasis is put on the numerical(More)
We investigate the dynamics of a single tracer exploring a course of fixed obstacles in the vicinity of the percolation transition for particles confined to the infinite cluster. The mean-square displacement displays anomalous transport, which extends to infinite times precisely at the critical obstacle density. The slowing down of the diffusion coefficient(More)