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TOPIC: CalComSim

CalComSim 2 years 6 months ago #22

is calcium signaling-based molecular communication system simulator design for both synthetic and natural cellular communication inside 3D human tissues. An integration of the biological models for such mechanism along side with an stochastic solver is used to handle multiple and parallel reactions in each cell of the tissue. Also, three different types of tissues were implemented. They can be classified as: non-excitable (tissues which cannot propagate electric current), excitable (tissues which can propagate electric current) and hybrid (tissues capable of communicating with both excitable and non-excitable tissues). Real data was used to model the following example of those different tissue types: epithelial (non-excitable), smooth muscle cells (excitable) and astrocytes (hybrid). Gap junctions were also stochastically modeled.
This entire framework enables proper analysis of such communication system based on completely validated models fitted with real data. This software thus can be used by, not only telecommunication engineers and biology scientists, but also pharmaceutical researcher that, in a combined effort, can design new drugs and treatments for diseases.
Calcomsim has been implemented in Python, and requires the following dependencies: Numpy, Scypy, Pypy, Cpython.

See also:
M. T. Barros, S. Balasubramaniam, B. Jennings, “ Comparative End-to-end Analysis of Ca2+ Signaling-based Molecular Communication in Biological Tissues,” IEEE Transactions on Communications, 2015, DOI: 10.1109/TCOMM.2015.2487349.
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