Journal article

A modular framework for multiscale, multicellular, spatiotemporal modeling of acute primary viral infection and immune response in epithelial tissues and its application to drug therapy timing and effectiveness

TJ Sego, Josua O Aponte-Serrano, Juliano Ferrari Gianlupi, Samuel R Heaps, Kira Breithaupt, Lutz Brusch, Jessica Crawshaw, James M Osborne, Ellen M Quardokus, Richard K Plemper, James A Glazier



Simulations of tissue-specific effects of primary acute viral infections like COVID-19 are essential for understanding disease outcomes and optimizing therapies. Such simulations need to support continuous updating in response to rapid advances in understanding of infection mechanisms, and parallel development of components by multiple groups. We present an open-source platform for multiscale spatiotemporal simulation of an epithelial tissue, viral infection, cellular immune response and tissue damage, specifically designed to be modular and extensible to support continuous updating and parallel development. The base simulation of a simplified patch of epithelial tissue and immune response e..

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University of Melbourne Researchers


Awarded by National Institutes of Health

Awarded by National Science Foundation

Awarded by German e:Med initiative (BMBF)

Awarded by German Research Foundation (DFG)

Funding Acknowledgements

JAG, TJS, JFG and JAS acknowledge funding from National Institutes of Health grants U24 EB028887 and R01 GM122424 and National Science Foundation grant NSF 1720625. LB acknowledges grant 01ZX1707A within the German e:Med initiative (BMBF) and grant 391070520 from the German Research Foundation (DFG). R.K.P. was supported, in part, by National Institutes of Health grants R01 AI071002, R01 AI141222 and R01 HD079327. This research was supported in part by Lilly Endowment, Inc., through its support for the Indiana University Pervasive Technology Institute. The funders had no role in manuscript preparation or the decision to submit the work for publication.