MASS CUDA: A General GPU Parallelization Framework for Agent-Based Models

2019 ◽  
pp. 139-152 ◽  
Author(s):  
Lisa Kosiachenko ◽  
Nathaniel Hart ◽  
Munehiro Fukuda
Keyword(s):  
Agent Based Models ◽  
Agent Based

scholarly journals Agent Based Models of Polymicrobial Biofilms and the Microbiome—A Review

2021 ◽  
Vol 9 (2) ◽  
pp. 417
Author(s):  
Sherli Koshy-Chenthittayil ◽  
Linda Archambault ◽  
Dhananjai Senthilkumar ◽  
Reinhard Laubenbacher ◽  
Pedro Mendes ◽  
...  
Keyword(s):  
Species Interactions ◽  
Computational Models ◽  
Human Microbiome ◽  
Agent Based Modeling ◽  
Autonomous Agent ◽  
Agent Based Models ◽  
Agent Based ◽  
Complex Interactions ◽  
Mucosal Surfaces ◽  
Living Organisms

The human microbiome has been a focus of intense study in recent years. Most of the living organisms comprising the microbiome exist in the form of biofilms on mucosal surfaces lining our digestive, respiratory, and genito-urinary tracts. While health-associated microbiota contribute to digestion, provide essential nutrients, and protect us from pathogens, disturbances due to illness or medical interventions contribute to infections, some that can be fatal. Myriad biological processes influence the make-up of the microbiota, for example: growth, division, death, and production of extracellular polymers (EPS), and metabolites. Inter-species interactions include competition, inhibition, and symbiosis. Computational models are becoming widely used to better understand these interactions. Agent-based modeling is a particularly useful computational approach to implement the various complex interactions in microbial communities when appropriately combined with an experimental approach. In these models, each cell is represented as an autonomous agent with its own set of rules, with different rules for each species. In this review, we will discuss innovations in agent-based modeling of biofilms and the microbiota in the past five years from the biological and mathematical perspectives and discuss how agent-based models can be further utilized to enhance our comprehension of the complex world of polymicrobial biofilms and the microbiome.

Modeling Direct Transmission Diseases Using Parallel Bitstring Agent-Based Models

2018 ◽  
Vol 5 (4) ◽  
pp. 1109-1120 ◽  
Author(s):  
Rogerio Luis Rizzi ◽  
Wesley Luciano Kaizer ◽  
Claudia Brandelero Rizzi ◽  
Guilherme Galante ◽  
Flavio Codeco Coelho
Keyword(s):  
Direct Transmission ◽  
Agent Based Models ◽  
Agent Based
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