Model validation of simulated granulomas at 200 days post-infection.

<p>A. Simulation using baseline containment parameter set. B. Simulation using TNF-α knockout parameter set (baseline containment parameter set but with k_{RNA_Mac} = 0 and k_{RNA_Tcell} = 0). C. Interferon-γ knockout parameter set (baseline containment parameter set P_STAT1 = 0). Cell types are as follows: resting macrophages (resting Mφ), infected macrophages (infected Mφ), chronically infected macrophage (chronic Mφ), activated macrophage (activated Mφ), pro-inflammatory T cell (T_γ), cytotoxic T cell (T_c), regulatory T cell (T_r), and extracellular bacteria (B_ext). Agent and bacteria colors are shown in the included legend. These same colors are used for subsequent images. Model parameters are given in Table S3 in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0068680#pone.0068680.s003" target="_blank">Appendix S3</a>, Table S4 in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0068680#pone.0068680.s003" target="_blank">Appendix S3</a>, and Table S5 in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0068680#pone.0068680.s003" target="_blank">Appendix S3</a>. For full length time-lapse simulations please see <a href="http://malthus.med.micro.umich.edu/lab/movies/TNF-IL10" target="_blank">http://malthus.med.micro.umich.edu/lab/movies/TNF-IL10</a>.