Multiscale Granuloma Simulations
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an on-line supplement for Multiscale computational modeling reveals a critical role for TNF-α receptor 1 dynamics in tuberculosis granuloma formation |
[ Kirschner Lab Time-Lapse Simulations Homepage | GranSim ]
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Fallahi-Sichani, M, El-Kebir, M, Marino, S, Kirschner, D*, Linderman, J.
Multi-scale computational modeling reveals a critical role for TNF-α receptor
1 dynamics in tuberculosis granuloma formation.
Journal of Immunology, 2011, March 15, vol. 186, no. 6, pp 3472-3483 (corresponding author).,
DOI: 10.4049/jimmunol.1003299,
PMID: 21321109,
PMCID: 3127549
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| Supporting Text: | Description of modeling methods |
| Supplementary Table S1: | TNF-independent and cellular/tissue scale (ABM) parameters, definitions and estimated values |
| Supplementary Table S2: | Molecular/single-cell scale TNF/TNFR parameters, definitions and values |
| Supplementary Table S3: | Definition of reaction species, reactions describing TNF/TNFR processes and their rates |
| Supplementary Table S4: | Differential equations describing TNF/TNFR processes |
| Supplementary Table S5: | Linking parameters used to calculate the probability of TNF-induced cell responses, definitions and estimated values |
| Supplementary Table S6: | LHS sensitivity analysis results for the effect of TNF-independent and cellular scale parameters on model outputs at day 200 post-infection |
| Supplementary Table S7: | LHS sensitivity analysis results for the effect of TNF/TNFR-associated molecular and linking parameters on model outputs at day 200 post-infection |
 Movie 1 |
 Movie 2 |
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Control of Mtb infection within a well-circumscribed granuloma |
Clearance of Mtb |
 Movie 3 |
 Movie 4 |
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Uncontrolled growth of Mtb due to TNF deletion |
Uncontrolled growth of Mtb due to IFN-&gamma deletion |
 Movie 5 |
 Movie 6 |
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Clearance of Mtb with extensive inflammation at very slow rates of TNFR1 internalization |
Clearance of Mtb at slow rates of TNFR1 internalization |
 Movie 7 |
 Movie 8 |
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Containment of Mtb within the granuloma at physiological rate of TNFR1 internalization |
Uncontrolled growth of Mtb at rapid rates of TNFR1 internalization |
| [ Kirschner Lab Time-Lapse Simulations Homepage | GranSim ] |