GutLogo: Agent-based modeling framework to investigate spatial and temporal dynamics in the gut microbiome.

ABSTRACT: Knowledge of the spatial and temporal dynamics of the gut microbiome is essential to understanding the state of human health, as over a hundred diseases have been correlated with changes in microbial populations. Unfortunately, due to the complexity of the microbiome and the limitations of in vivo and in vitro experiments, studying spatial and temporal dynamics of gut bacteria in a biological setting is extremely challenging. Thus, in silico experiments present an excellent alternative for studying such systems. In consideration of these issues, we have developed a user-friendly agent-based model, GutLogo, that captures the spatial and temporal development of four representative bacterial genera populations in the ileum. We demonstrate the utility of this model by simulating population res

SUBMITTER: Lin C 

PROVIDER: S-EPMC6226173 | biostudies-literature | 2018

REPOSITORIES: biostudies-literature