Multi-scale Modeling Consortium grant sponsored by NLM and NHLBI of the NIH

A multi-scale approach for understanding antigen presentation in immunity

SBML format of Models:

To make our models "sharing-friendly", we have prepared SBML format for the models in the papers in the following links that are derived from this study:

Simeone Marino, Mohammed El-Kebir, Denise Kirschner A hybrid multi-compartment model of granuloma formation and T cell priming in Tuberculosis, Journal of Theoretical Biology 280 (2011) pp. 50-62.,, PMID: 21443879, PMCID: 3740747

Myers AJ, Marino S, Kirschner DE, Flynn JL, Inoculation Dose of Mycobacterium tuberculosis Does Not Influence Priming of T Cell Responses in Lymph Nodes, J Immunol. 2013 Apr 1 [Epub ahead of print], PMID: 23547119,

Simeone Marino, Amy Myers, JoAnne L. Flynn, Denise E. Kirschner, TNF and IL-10 are major factors in modulation of the phagocytic cell environment in lung and lymph node in tuberculosis: A next-generation two-compartmental model, Journal of Theoretical Biology 265 (2010), pp 586-598, PMID: 20510249, PMCID: 3150786

Fallahi-Sichani M, Flynn JL, Linderman JJ, Kirschner DE, Differential risk of tuberculosis reactivation among anti-TNF therapies is due to drug binding kinetics and permeability and not apoptotic and cytolytic activities, J. Immunology, 2012, The Journal of Immunology, April 1, vol. 188, no. 7, pp. 3169-3178, DOI: doi:10.4049/jimmunol.1103298, PMID: 22379032, PMCID: 352958

Guzzetta, G, Ajelli, M, Yang, Z, Merler, S, Furlanello, C, Kirschner, D. Modeling socio-demography to capture TB transmission in a low burden setting, J. Theor. Biology, Nov 21 2011. 289:197-205., PMID: 21906603, PMCID: 3208139 - A SBML file made for the equations for blood compartment in LN model. Because the model is not intended to be run independently, and parts of the equations rely on LN outputs, it only contains equations, initial conditions and some parameters needed to define the system. - Filed created by Chang Gong, Mar 2014

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