Discrete agent-based models
When rare events are important for the problem under consideration, stochastic event generators are appropriate. Such state-space models can be complemented by explicit discretized representations of space in two or three dimensions. We use this grid for cell or organelle motility as well as for solving reaction-diffusion systems. Each cell or organelle is represented as an instance of a class in C++. Each object evolves its internal state, secretes, senses and consumes solubles, move in space (eventually in dependence on chemokine gradients).
It is this kind of hybrid event generators that were employed for the germinal centre research (including the LEDA model) and for some analyses of multi-photon lymphocyte migration data. We extended this method to a sub-cellular representation with an amorphous cytosol. This rather simple sub-cellular model was able to grasp many parameters of lymphocyte motility. We called this modelling platform of interacting cells with a subcellular resolution HYPHASMA, greek for tissue.
Sebastian C. Binder, Jaber Dehghany, Michael Meyer-Hermann
Meyer-Hermann M, Maini PK. Interpreting two-photon imaging data of lymphocyte motility. Phys Rev E 71 (2005) 061912-1-12.
- Systems Immunology- Prof. Dr. Michael Meyer-Hermann