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DOE OSTI · 1237360

A method for modeling oxygen diffusion in an agent-based model with application to host-pathogen infection

Plimpton, Steven J.·Sershen, Cheryl L.·May, Elebeoba E.
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Abstract

This paper describes a method for incorporating a diffusion field modeling oxygen usage and dispersion in a multi-scale model of Mycobacterium tuberculosis (Mtb) infection mediated granuloma formation. We implemented this method over a floating-point field to model oxygen dynamics in host tissue during chronic phase response and Mtb persistence. The method avoids the requirement of satisfying the Courant-Friedrichs-Lewy (CFL) condition, which is necessary in implementing the explicit version of the finite-difference method, but imposes an impractical bound on the time step. Instead, diffusion is modeled by a matrix-based, steady state approximate solution to the diffusion equation. Moreover, presented in figure 1 is the evolution of the diffusion profiles of a containment granuloma over time.

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Plimpton, Steven J., Sershen, Cheryl L., May, Elebeoba E.. 2015-01-01. A method for modeling oxygen diffusion in an agent-based model with application to host-pathogen infection. https://doi.org/10.1109/embc.2014.6943590

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