Dataset: Diffusion through complex confining environments – motion in fluctuating porous membrane structures

The data supporting the findings in: Jakob Mihatsch, Andreas M. Menzel, Diffusion through complex confining environments – motion in fluctuating porous membrane structures, Biophysical Journal, 2026, https://doi.org/10.1016/j.bpj.2026.06.008. flat_surface: corresponds to Fig. 2 of the reference paper. The file contains a numpy array of size (4096,2). Each row is a pair of the form [|k|, h_k h_{-k}] l6-l8: the data from Figs. 5-7 of the reference paper, as well as the part of Fig. 3 where M_R=1. Sorted by the radius l of the particle. Files named "full" contain simulation results for the full dynamics, "noforce" contain simulations where there is no force exerted by the particle on the membrane, "nofluc" means that the membrane does not move at all. The files contain numpy arrays of size (T, 3) with a time series of the position of the particle in three-dimensional space. Between subsequent entries a time of dt=1 has passed. M: corresponds to Fig.3 of the reference paper. Files with M01 contain results for M_R=0.1. Files with M10 contain results for M_R=10. The files contain numpy arrays of size (T, 3) with a time series of the position of the particle in three-dimensional space. Between subsequent entries a time of dt=1 has passed. starting_configurations: the starting configurations of the phase_field used in l6-l8, M. Each file contains a numpy array of size (120,120,120) with the values of the phase field on a grid of size 120x120x120. The starting configuration with index i was used for all simulations with index j where j%64=1.