Tutorial on agent-based modeling and simulation
WSC '05 Proceedings of the 37th conference on Winter simulation
iSimBioSys: A Discrete Event Simulation Platform for 'in silico' study of biological systems
ANSS '06 Proceedings of the 39th annual Symposium on Simulation
Spatially explicit individual-based modeling using a fixed super-individual density
Computers & Geosciences
HoloMAS '07 Proceedings of the 3rd international conference on Industrial Applications of Holonic and Multi-Agent Systems: Holonic and Multi-Agent Systems for Manufacturing
Engineering Self-modeling Systems: Application to Biology
Engineering Societies in the Agents World IX
Proceedings of the Winter Simulation Conference
Multi-agent model of hepatitis C virus infection
Artificial Intelligence in Medicine
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Motivation: In recent years, single-cell biology has focused on the relationship between the stochastic nature of molecular interactions and variability of cellular behavior. To describe this relationship, it is necessary to develop new computational approaches at the single-cell level. Results: We have developed AgentCell, a model using agent-based technology to study the relationship between stochastic intracellular processes and behavior of individual cells. As a test-bed for our approach we use bacterial chemotaxis, one of the best characterized biological systems. In this model, each bacterium is an agent equipped with its own chemotaxis network, motors and flagella. Swimming cells are free to move in a 3D environment. Digital chemotaxis assays reproduce experimental data obtained from both single cells and bacterial populations. Availability: AgentCell is available on request from the authors. Contact: emonet@uchicago.edu Supplementary information: Available at http://bioinformatics.oupjournals.org/cgi/data/bti391/DC1/1