Merge pull request #955 from rando2/add_dhimmel

[ci skip] This build is based on f2ec4ba. This commit was created by the following CI build and job: https://github.com/greenelab/covid19-review/commit/f2ec4bad837f7f6707f84af911d1930845017031/checks https://github.com/greenelab/covid19-review/runs/800901385
greenelab · Apr 30, 2021 · df357b3 · df357b3
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diff --git a/manuscript.html b/manuscript.html
@@ -54,6 +54,7 @@
   <meta name="author" content="Joel D Boerckel" />
   <meta name="author" content="Amruta Naik" />
   <meta name="author" content="Yusha Sun" />
+  <meta name="author" content="Daniel S. Himmelstein" />
   <meta name="dcterms.date" content="2021-04-30" />
   <meta name="keywords" content="covid-19, coronavirus, pandemic, viral infection" />
   <title>SARS-CoV-2 and COVID-19: An Evolving Review of Diagnostics and Therapeutics</title>
@@ -271,19 +272,24 @@
   <meta name="citation_author" content="Yusha Sun" />
   <meta name="citation_author_institution" content="Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America" />
   <meta name="citation_author_orcid" content="0000-0003-4835-3000" />
+  <meta name="citation_author" content="Daniel S. Himmelstein" />
+  <meta name="citation_author_institution" content="Department of Systems Pharmacology and Translational Therapeutics, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America" />
+  <meta name="citation_author_institution" content="Related Sciences" />
+  <meta name="citation_author_orcid" content="0000-0002-3012-7446" />
+  <meta name="twitter:creator" content="@dhimmel" />
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@@ -295,9 +301,9 @@ <h1 class="title">SARS-CoV-2 and COVID-19: An Evolving Review of Diagnostics and
 </header>
 <p><small><em>
 This manuscript
-(<a href="https://greenelab.github.io/covid19-review/v/7106785336fdce386aac8bf454a8ce3aced0d9dc/">permalink</a>)
+(<a href="https://greenelab.github.io/covid19-review/v/f2ec4bad837f7f6707f84af911d1930845017031/">permalink</a>)
 was automatically generated
-from <a href="https://github.com/greenelab/covid19-review/tree/7106785336fdce386aac8bf454a8ce3aced0d9dc">greenelab/covid19-review@7106785</a>
+from <a href="https://github.com/greenelab/covid19-review/tree/f2ec4bad837f7f6707f84af911d1930845017031">greenelab/covid19-review@f2ec4ba</a>
 on April 30, 2021.
 Snapshots of individual sections are available as preprints <span class="citation" data-cites="r366f5T3 1B22G6dja cifK9B8t">[<a href="#ref-r366f5T3" role="doc-biblioref">1</a>,<a href="#ref-1B22G6dja" role="doc-biblioref">2</a>,<a href="#ref-cifK9B8t" role="doc-biblioref">3</a>]</span>.
 </em></small></p>
@@ -641,9 +647,17 @@ <h1 class="unnumbered" data-number="" id="authors">Authors</h1>
 <small>
 Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America
 </small></p></li>
+<li><p><strong>Daniel S. Himmelstein</strong><br> <img src="images/orcid.svg" class="inline_icon" alt="ORCID icon" />
+<a href="https://orcid.org/0000-0002-3012-7446">0000-0002-3012-7446</a> · <img src="images/github.svg" class="inline_icon" alt="GitHub icon" />
+<a href="https://github.com/dhimmel">dhimmel</a> · <img src="images/twitter.svg" class="inline_icon" alt="Twitter icon" />
+<a href="https://twitter.com/dhimmel">dhimmel</a><br>
+<small>
+Department of Systems Pharmacology and Translational Therapeutics, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America; Related Sciences
+· Funded by GBMF4552
+</small></p></li>
 </ul>
 <p><strong>COVID-19 Review Consortium:</strong>
-Vikas Bansal, John P. Barton, Simina M. Boca, Joel D Boerckel, Christian Brueffer, James Brian Byrd, Stephen Capone, Shikta Das, Anna Ada Dattoli, John J. Dziak, Jeffrey M. Field, Soumita Ghosh, Anthony Gitter, Rishi Raj Goel, Casey S. Greene, Marouen Ben Guebila, Fengling Hu, Nafisa M. Jadavji, Sergey Knyazev, Likhitha Kolla, Alexandra J. Lee, Ronan Lordan, Tiago Lubiana, Temitayo Lukan, Adam L. MacLean, David Mai, Serghei Mangul, David Manheim, Lucy D'Agostino McGowan, Amruta Naik, YoSon Park, Dimitri Perrin, Yanjun Qi, Diane N. Rafizadeh, Bharath Ramsundar, Halie M. Rando, Sandipan Ray, Michael P. Robson, Vincent Rubinetti, Elizabeth Sell, Lamonica Shinholster, Ashwin N. Skelly, Yuchen Sun, Yusha Sun, Gregory L Szeto, Ryan Velazquez, Jinhui Wang, Nils Wellhausen</p>
+Vikas Bansal, John P. Barton, Simina M. Boca, Joel D Boerckel, Christian Brueffer, James Brian Byrd, Stephen Capone, Shikta Das, Anna Ada Dattoli, John J. Dziak, Jeffrey M. Field, Soumita Ghosh, Anthony Gitter, Rishi Raj Goel, Casey S. Greene, Marouen Ben Guebila, Daniel S. Himmelstein, Fengling Hu, Nafisa M. Jadavji, Sergey Knyazev, Likhitha Kolla, Alexandra J. Lee, Ronan Lordan, Tiago Lubiana, Temitayo Lukan, Adam L. MacLean, David Mai, Serghei Mangul, David Manheim, Lucy D'Agostino McGowan, Amruta Naik, YoSon Park, Dimitri Perrin, Yanjun Qi, Diane N. Rafizadeh, Bharath Ramsundar, Halie M. Rando, Sandipan Ray, Michael P. Robson, Vincent Rubinetti, Elizabeth Sell, Lamonica Shinholster, Ashwin N. Skelly, Yuchen Sun, Yusha Sun, Gregory L Szeto, Ryan Velazquez, Jinhui Wang, Nils Wellhausen</p>
 <p>Authors are ordered arbitrarily.</p>
 <h1 class="page_break_before unnumbered" data-number="" id="abstract">Abstract</h1>
 <p>Since late 2019, Coronavirus disease 2019 (COVID-19) has spread around the world, resulting in the declaration of a pandemic by the World Health Organization (WHO).
@@ -4520,6 +4534,11 @@ <h2 data-number="12.1" id="competing-interests"><span class="header-section-numb
 <td>None</td>
 <td>2021-04-10</td>
 </tr>
+<tr class="odd">
+<td>Daniel S. Himmelstein</td>
+<td>None</td>
+<td>2021-04-30</td>
+</tr>
 </tbody>
 </table>
 <h2 data-number="12.2" id="author-contributions"><span class="header-section-number">12.2</span> Author Contributions</h2>
@@ -4735,6 +4754,10 @@ <h2 data-number="12.2" id="author-contributions"><span class="header-section-num
 <td>Yusha Sun</td>
 <td>Writing - Review &amp; Editing</td>
 </tr>
+<tr class="odd">
+<td>Daniel S. Himmelstein</td>
+<td>Software</td>
+</tr>
 </tbody>
 </table>
 <h2 data-number="12.3" id="acknowledgements"><span class="header-section-number">12.3</span> Acknowledgements</h2>
@@ -8709,7 +8732,7 @@ <h1 class="page_break_before" data-number="13" id="references"><span class="head
 <em>The New York Times</em> <a href="https://www.nytimes.com/interactive/2020/science/coronavirus-vaccine-tracker.html">https://www.nytimes.com/interactive/2020/science/coronavirus-vaccine-tracker.html</a></p>
 </div>
 <div id="ref-DQmAgN0V">
-<p>692. <strong>Bloomberg - Are you a robot?</strong> <a href="https://www.bloomberg.com/tosv2.html?vid=&amp;uuid=d5b2b190-a9fd-11eb-9b6a-6790f8ef57db&amp;url=L2dyYXBoaWNzL2NvdmlkLXZhY2NpbmUtdHJhY2tlci1nbG9iYWwtZGlzdHJpYnV0aW9u">https://www.bloomberg.com/tosv2.html?vid=&amp;uuid=d5b2b190-a9fd-11eb-9b6a-6790f8ef57db&amp;url=L2dyYXBoaWNzL2NvdmlkLXZhY2NpbmUtdHJhY2tlci1nbG9iYWwtZGlzdHJpYnV0aW9u</a></p>
+<p>692. <strong>Bloomberg - Are you a robot?</strong> <a href="https://www.bloomberg.com/tosv2.html?vid=&amp;uuid=b626a110-aa07-11eb-9023-277284a8e405&amp;url=L2dyYXBoaWNzL2NvdmlkLXZhY2NpbmUtdHJhY2tlci1nbG9iYWwtZGlzdHJpYnV0aW9u">https://www.bloomberg.com/tosv2.html?vid=&amp;uuid=b626a110-aa07-11eb-9023-277284a8e405&amp;url=L2dyYXBoaWNzL2NvdmlkLXZhY2NpbmUtdHJhY2tlci1nbG9iYWwtZGlzdHJpYnV0aW9u</a></p>
 </div>
 <div id="ref-gsNWcXHn">
 <p>693. <strong>Sputnik V, Covishield, Covaxin: What we know about India’s Covid-19 vaccines</strong> <br />
@@ -9755,7 +9778,7 @@ <h1 class="page_break_before" data-number="13" id="references"><span class="head
 <a href="https://ourworldindata.org/covid-vaccinations">https://ourworldindata.org/covid-vaccinations</a></p>
 </div>
 <div id="ref-uvQMgFXB">
-<p>892. <strong>Bloomberg - Are you a robot?</strong> <a href="https://www.bloomberg.com/tosv2.html?vid=&amp;uuid=d5d358f0-a9fd-11eb-8d6e-31ca0640cc51&amp;url=L25ld3MvYXJ0aWNsZXMvMjAyMC0xMi0wMi93aXRoaW4taG91cnMtb2YtdS1rLXB1dGluLW9yZGVycy1zdGFydC1vZi1tYXNzLWNvdmlkLTE5LXNob3Rz">https://www.bloomberg.com/tosv2.html?vid=&amp;uuid=d5d358f0-a9fd-11eb-8d6e-31ca0640cc51&amp;url=L25ld3MvYXJ0aWNsZXMvMjAyMC0xMi0wMi93aXRoaW4taG91cnMtb2YtdS1rLXB1dGluLW9yZGVycy1zdGFydC1vZi1tYXNzLWNvdmlkLTE5LXNob3Rz</a></p>
+<p>892. <strong>Bloomberg - Are you a robot?</strong> <a href="https://www.bloomberg.com/tosv2.html?vid=&amp;uuid=b6618730-aa07-11eb-b6f0-c7ccb1fc690d&amp;url=L25ld3MvYXJ0aWNsZXMvMjAyMC0xMi0wMi93aXRoaW4taG91cnMtb2YtdS1rLXB1dGluLW9yZGVycy1zdGFydC1vZi1tYXNzLWNvdmlkLTE5LXNob3Rz">https://www.bloomberg.com/tosv2.html?vid=&amp;uuid=b6618730-aa07-11eb-b6f0-c7ccb1fc690d&amp;url=L25ld3MvYXJ0aWNsZXMvMjAyMC0xMi0wMi93aXRoaW4taG91cnMtb2YtdS1rLXB1dGluLW9yZGVycy1zdGFydC1vZi1tYXNzLWNvdmlkLTE5LXNob3Rz</a></p>
 </div>
 <div id="ref-Vwv7l7Hd">
 <p>893. <strong>Facing Record Covid-19 Case Rise, Russia Rolls Out Sputnik V Vaccine</strong> <br />

diff --git a/manuscript.md b/manuscript.md
@@ -58,6 +58,7 @@ author-meta:
 - Joel D Boerckel
 - Amruta Naik
 - Yusha Sun
+- Daniel S. Himmelstein
 header-includes: |-
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   Manubot generated metadata rendered from header-includes-template.html.
@@ -262,19 +263,24 @@ header-includes: |-
   <meta name="citation_author" content="Yusha Sun" />
   <meta name="citation_author_institution" content="Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America" />
   <meta name="citation_author_orcid" content="0000-0003-4835-3000" />
+  <meta name="citation_author" content="Daniel S. Himmelstein" />
+  <meta name="citation_author_institution" content="Department of Systems Pharmacology and Translational Therapeutics, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America" />
+  <meta name="citation_author_institution" content="Related Sciences" />
+  <meta name="citation_author_orcid" content="0000-0002-3012-7446" />
+  <meta name="twitter:creator" content="@dhimmel" />
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 <small><em>
 This manuscript
-([permalink](https://greenelab.github.io/covid19-review/v/7106785336fdce386aac8bf454a8ce3aced0d9dc/))
+([permalink](https://greenelab.github.io/covid19-review/v/f2ec4bad837f7f6707f84af911d1930845017031/))
 was automatically generated
-from [greenelab/covid19-review@7106785](https://github.com/greenelab/covid19-review/tree/7106785336fdce386aac8bf454a8ce3aced0d9dc)
+from [greenelab/covid19-review@f2ec4ba](https://github.com/greenelab/covid19-review/tree/f2ec4bad837f7f6707f84af911d1930845017031)
 on April 30, 2021.
 Snapshots of individual sections are available as preprints [@individual-pathogenesis; @individual-nutraceuticals; @individual-pharmaceuticals].
 </em></small>
@@ -698,10 +704,19 @@ Instead, you should collect information from your local health department, the [
      Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America
   </small>
 
++ **Daniel S. Himmelstein**<br> ![ORCID icon](images/orcid.svg){.inline_icon}
+    [0000-0002-3012-7446](https://orcid.org/0000-0002-3012-7446) · ![GitHub icon](images/github.svg){.inline_icon}
+    [dhimmel](https://github.com/dhimmel) · ![Twitter icon](images/twitter.svg){.inline_icon}
+    [dhimmel](https://twitter.com/dhimmel)<br>
+  <small>
+     Department of Systems Pharmacology and Translational Therapeutics, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America; Related Sciences
+     · Funded by GBMF4552
+  </small>
+
 
 
 **COVID-19 Review Consortium:**
-Vikas Bansal, John P. Barton, Simina M. Boca, Joel D Boerckel, Christian Brueffer, James Brian Byrd, Stephen Capone, Shikta Das, Anna Ada Dattoli, John J. Dziak, Jeffrey M. Field, Soumita Ghosh, Anthony Gitter, Rishi Raj Goel, Casey S. Greene, Marouen Ben Guebila, Fengling Hu, Nafisa M. Jadavji, Sergey Knyazev, Likhitha Kolla, Alexandra J. Lee, Ronan Lordan, Tiago Lubiana, Temitayo Lukan, Adam L. MacLean, David Mai, Serghei Mangul, David Manheim, Lucy D\'Agostino McGowan, Amruta Naik, YoSon Park, Dimitri Perrin, Yanjun Qi, Diane N. Rafizadeh, Bharath Ramsundar, Halie M. Rando, Sandipan Ray, Michael P. Robson, Vincent Rubinetti, Elizabeth Sell, Lamonica Shinholster, Ashwin N. Skelly, Yuchen Sun, Yusha Sun, Gregory L Szeto, Ryan Velazquez, Jinhui Wang, Nils Wellhausen
+Vikas Bansal, John P. Barton, Simina M. Boca, Joel D Boerckel, Christian Brueffer, James Brian Byrd, Stephen Capone, Shikta Das, Anna Ada Dattoli, John J. Dziak, Jeffrey M. Field, Soumita Ghosh, Anthony Gitter, Rishi Raj Goel, Casey S. Greene, Marouen Ben Guebila, Daniel S. Himmelstein, Fengling Hu, Nafisa M. Jadavji, Sergey Knyazev, Likhitha Kolla, Alexandra J. Lee, Ronan Lordan, Tiago Lubiana, Temitayo Lukan, Adam L. MacLean, David Mai, Serghei Mangul, David Manheim, Lucy D\'Agostino McGowan, Amruta Naik, YoSon Park, Dimitri Perrin, Yanjun Qi, Diane N. Rafizadeh, Bharath Ramsundar, Halie M. Rando, Sandipan Ray, Michael P. Robson, Vincent Rubinetti, Elizabeth Sell, Lamonica Shinholster, Ashwin N. Skelly, Yuchen Sun, Yusha Sun, Gregory L Szeto, Ryan Velazquez, Jinhui Wang, Nils Wellhausen
 
 
 Authors are ordered arbitrarily.
@@ -4848,6 +4863,7 @@ This application of version control holds the potential to improve scientific pu
 |Joel D Boerckel|None|2021-03-26|
 |Amruta Naik|None|2021-04-05|
 |Yusha Sun|None|2021-04-10|
+|Daniel S. Himmelstein|None|2021-04-30|
 
 ### Author Contributions
 
@@ -4903,6 +4919,7 @@ This application of version control holds the potential to improve scientific pu
 |Joel D Boerckel|Writing - Review & Editing|
 |Amruta Naik|**MISSING**|
 |Yusha Sun|Writing - Review & Editing|
+|Daniel S. Himmelstein|Software|
 
 ### Acknowledgements
 

diff --git a/manuscript.pdf b/manuscript.pdf
diff --git a/pathogenesis-manuscript.docx b/pathogenesis-manuscript.docx