The study of how cells interact to produce tissue development, homeostasis, or diseases
was, until recently, almost purely experimental. Now, multi-cell computer simulation …

Lumens, liquid-filled cavities surrounded by polarized tissue cells, are elementary units
involved in the morphogenesis of organs. Theoretical modeling and computations, which …

We developed a three-dimensional (3D) cell model of a multicellular aggregate consisting of
several polyhedral cells to investigate the deformation and rearrangement of cells under the …

Multiscale problems are ubiquitous and fundamental in all biological phenomena that
emerge naturally from the complex interaction of processes which occur at various levels. A …

We present COMPUCELL3D, a software framework for three-dimensional simulation of
morphogenesis in different organisms. COMPUCELL3D employs biologically relevant …

The freshwater polyp Hydra has considerable regeneration capabilities. A small fragment of
tissue excised from an adult animal is sufficient to regenerate an entire Hydra in the course …

Mathematical modeling and computer simulation have become crucial to biological fields
from genomics to ecology. However, multicell, tissue-level simulations of development and …

The CompuCell3D modeling environment provides a convenient platform for biofilm
simulations using the Glazier-Graner-Hogeweg (GGH) model, a cell-oriented framework …

A flexible, cell-level, and lattice-based technique, the cellular Potts model accurately
describes the phenomenological mechanisms involved in many biological processes …

We present a theory for pore dynamics of osmotically stressed vesicles. When a liposome
with an internal concentration of solute is placed inside a solute-depleted medium, an …