Unverified Commit 285cf022 authored by Paul Macklin's avatar Paul Macklin Committed by GitHub
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Update about.html

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<p>This model simulates replication dynamics of SARS-CoV-2 (coronavirus / COVID19) in a layer of epithelium.
It is being rapidly prototyped and refined with community support (<a href="#model_details">see below</a>). </p>
<p>In this model, SARS-CoV-2 (coronavirus / COVID19) infects a single cell. The virus is uncoated to expose viral RNA, which synthesizes viral proteins that are assembled into a virion. Assembled virions are exported to the environment. Virions diffuse and can infect other cells (including the original cell). </p>
<p>In this model, SARS-CoV-2 (coronavirus / COVID19) infects a single cell, or a
solution of virions is administered to the extracellular space. The virus is
uncoated to explose viral RNA, which synthesizes viral proteins that are
assembled into a virion. Assembled virions are exported to the environment,
where they can diffuse and infect other cells. In the extracellular space,
virions adhere to ACE2 receptors and get internalized through endocytosis.
Internalized ACE2 receptors release their virus cargo and are recycled back to the surface.
</p>
<p>
The model includes a basic pharmacodynamic response (to assembled virions) to cause
cell apoptosis. Apoptosed cells release some or all of their internal contents,
notably including virions.
</p>
<p>The model includes a basic pharmacodynamic response (to assembled virions) to cause cell apoptosis. Apoptosed cells release some or all of their internal contents, notably including virions. </p>
<p>
Please cite this project via the preprint:
</p>
<p style="text-align: center;">
Y. Wang et al., Rapid community-driven development of a SARS-CoV-2 tissue simulator.
<i>bioRxiv</i> 2020.04.02.019075, 2020, <b>(Preprint)</b>.
doi: <a href="https://dx.doi.org/10.1101/2020.04.02.019075" target="_blank">10.1101/2020.04.02.019075</a>.
</p>
<p><strong>Legend:</strong></b>
<ul>
......@@ -21,7 +41,7 @@ It is being rapidly prototyped and refined with community support (<a href="#mod
Black cells are apoptotic (dead from viral load).
</li>
<li><strong>Background:</strong> Contour plot of released virus that is diffusion in and above the tissue.
<li><strong>Background:</strong> Contour plot of released virus that is diffusing in and above the tissue.
</li>
</ul>
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</ul>
<p><strong>
This model will be continually refined with input from the community, particularly experts in infectious diseases. The validation state will be updated as this progresses.</strong></p>
This model will be continually refined with input from the community, particularly experts
in infectious diseases. The validation state will be updated as this progresses.</strong></p>
<h2 id="GUI_overview"><strong>GUI Overview</strong></h2>
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<h2 id="model_details"><strong>Model details</strong></h2>
<p>This model is being rapidly prototyped. Biological and mathematical detail can be found at:</p>
<p>
<a href="https://github.com/MathCancer/COVID19/wiki/About" target="_blank">https://github.com/MathCancer/COVID19/wiki/About</a> (opens in new tab)
</p>
<ul>
<li>
<b>Project website:</b> <a href="http://covid19.physicell.org" target="_blank">http://covid19.physicell.org</a> (opens in new tab)
</li>
<li>
<b>Model feedback:</b> <a href="https://?" target="_blank">Google feedback form</a> (opens in new tab)
</li>
<li>
<b>Preprint:</b> <a href="https://dx.doi.org/10.1101/2020.04.02.019075" target="_blank">Wang et al. (2020)</a> (opens in new tab)
</li>
<li>
<b>GitHub codes:</b> <a href="https://github.com/pc4covid19" target="_blank">pc4covid19 GitHub organization</a> (opens in new tab)
</li>
</ul>
<p><strong>We request community help in estimating parameters and improving model assumptions at the link above. </strong>
</p>
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<h3><strong>About the software: </strong></h3>
<p>
This model and cloud-hosted demo are part of the education and outreach for the IU Engineered nanoBIO Node and the NCI-funded cancer systems biology grant U01CA232137. The models are built using PhysiCell: a C++ framework for multicellular systems biology [1] for the core simulation engine and xml2jupyter [2] to create the graphical user interface (GUI).</p>
This model and cloud-hosted demo are part of the education and outreach
for the IU Engineered nanoBIO Node and the NCI-funded cancer systems biology grant U01CA232137.
The models are built using PhysiCell: a C++ framework for multicellular systems biology [1]
for the core simulation engine and xml2jupyter [2] to create the graphical user interface (GUI).</p>
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