3D mesh processing using GAMer 2 to enable reaction-diffusion simulations in realistic cellular geometries.

ABSTRACT: Recent advances in electron microscopy have enabled the imaging of single cells in 3D at nanometer length scale resolutions. An uncharted frontier for in silico biology is the ability to simulate cellular processes using these observed geometries. Enabling such simulations requires watertight meshing of electron micrograph images into 3D volume meshes, which can then form the basis of computer simulations of such processes using numerical techniques such as the finite element method. In this paper, we describe the use of our recently rewritten mesh processing software, GAMer 2, to bridge the gap between poorly conditioned meshes generated from segmented micrographs and boundary marked tetrahedral meshes which are compatible with simulation. We demonstrate the application of a workflow usin

SUBMITTER: Lee CT 

PROVIDER: S-EPMC7162555 | biostudies-literature | 2020 Apr

REPOSITORIES: biostudies-literature