Simulating coxsackievirus B3 infection with an accessible computational model of its complete kinetics

Cameron D Griffiths; Andrew J Sweatt; Kevin A Janes

doi:10.1016/j.xpro.2021.100940

Simulating coxsackievirus B3 infection with an accessible computational model of its complete kinetics

STAR Protoc. 2021 Nov 5;2(4):100940. doi: 10.1016/j.xpro.2021.100940. eCollection 2021 Dec 17.

Authors

Cameron D Griffiths¹, Andrew J Sweatt¹, Kevin A Janes^{1

2}

Affiliations

¹ Department of Biomedical Engineering, University of Virginia, Charlottesville, VA 22908, USA.
² Department of Biochemistry & Molecular Genetics, University of Virginia, Charlottesville, VA 22908, USA.

Abstract

We describe how to use a publicly available computational model for coxsackievirus B3 (CVB3) infection that we recast as a graphical user interface (GUI). The GUI-based implementation enables non-computationalists to incorporate systems-biology modeling into their research and teaching. The model simulates the full life cycle of CVB3, including the host antiviral response, and includes 44 alterable parameters. The model simplifies some viral life cycle processes to improve interpretability and utility when performing in silico experiments. For complete details on the use and execution of this protocol, please refer to Lopacinski et al. (2021).

Keywords: Computer sciences; Microbiology; Systems biology.

Publication types

Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't

MeSH terms

Computer Simulation*
Coxsackievirus Infections / virology*
Enterovirus B, Human* / pathogenicity
Enterovirus B, Human* / physiology
Humans
Kinetics
Software
Systems Biology / methods*
User-Computer Interface*
Virion / pathogenicity
Virion / physiology

Grants and funding

T32 HL007284/HL/NHLBI NIH HHS/United States