Optimization of Agent-Based Models Through Coarse-Graining

A Case Study in Microbial Ecology

  • Sherli Koshy-Chenthittayil University of Connecticut
  • Pedro Mendes
  • Reinhard Laubenbacher University of Florida
Keywords: optimization, agent-based models, Pareto frontier, microbial biofilms


Optimization and control are important objectives across biology and biomedicine, and mathematical models are a key enabling technology. This paper reports a computational study of model-based multi-objective optimization in the setting of microbial ecology, using agent-based models. This modeling framework is well-suited to the field, but is not amenable to standard control-theoretic approaches. Furthermore, due to computational complexity, simulation-based optimization approaches are often challenging to implement. This paper presents the results of an approach that combines control-dependent model reduction with Pareto optimization, applied to two models of multi-species bacterial biofilms. It shows that this approach can be successful for models whose computational complexity prevents effective simulation-based optimization.

How to Cite
Koshy-Chenthittayil, Sherli, Pedro Mendes, and Reinhard Laubenbacher. 2021. “Optimization of Agent-Based Models Through Coarse-Graining”. Letters in Biomathematics 8 (1), 167–178. https://lettersinbiomath.journals.publicknowledgeproject.org/index.php/lib/article/view/431.