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Identification of potential treatments for COVID-19 through artificial intelligence-enabled phenomic analysis of human cells infected with SARS-CoV-2

Katie Heiser, Peter F. McLean, Chadwick T. Davis, Ben Fogelson, Hannah B. Gordon, Pamela Jacobson, Brett Hurst, Ben Miller, Ronald W. Alfa, Berton A. Earnshaw, Mason L. Victors, Yolanda T. Chong, Imran S. Haque, Adeline S. Low, Christopher C. Gibson
doi: https://doi.org/10.1101/2020.04.21.054387
Katie Heiser
1Recursion, Salt Lake City, UT, United States
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Peter F. McLean
1Recursion, Salt Lake City, UT, United States
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Chadwick T. Davis
1Recursion, Salt Lake City, UT, United States
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Ben Fogelson
1Recursion, Salt Lake City, UT, United States
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Hannah B. Gordon
1Recursion, Salt Lake City, UT, United States
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Pamela Jacobson
1Recursion, Salt Lake City, UT, United States
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Brett Hurst
2Utah State University, Logan, UT, United States
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Ben Miller
1Recursion, Salt Lake City, UT, United States
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Ronald W. Alfa
1Recursion, Salt Lake City, UT, United States
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Berton A. Earnshaw
1Recursion, Salt Lake City, UT, United States
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Mason L. Victors
1Recursion, Salt Lake City, UT, United States
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Yolanda T. Chong
1Recursion, Salt Lake City, UT, United States
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Imran S. Haque
1Recursion, Salt Lake City, UT, United States
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Adeline S. Low
1Recursion, Salt Lake City, UT, United States
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Christopher C. Gibson
1Recursion, Salt Lake City, UT, United States
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  • For correspondence: chris.gibson@recursionpharma.com
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Abstract

To identify potential therapeutic stop-gaps for SARS-CoV-2, we evaluated a library of 1,670 approved and reference compounds in an unbiased, cellular image-based screen for their ability to suppress the broad impacts of the SARS-CoV-2 virus on phenomic profiles of human renal cortical epithelial cells using deep learning. In our assay, remdesivir is the only antiviral tested with strong efficacy, neither chloroquine nor hydroxychloroquine have any beneficial effect in this human cell model, and a small number of compounds not currently being pursued clinically for SARS-CoV-2 have efficacy. We observed weak but beneficial class effects of β-blockers, mTOR/PI3K inhibitors and Vitamin D analogues and a mild amplification of the viral phenotype with β-agonists.

Competing Interest Statement

All authors from Recursion have real or potential ownership interest in the company. However, Recursion has committed to free non-discriminatory licensing for any of its intellectual property around discoveries related to the treatment of COVID19.

Footnotes

  • ↵+ Co-First Authors

  • https://www.rxrx.ai/

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC 4.0 International license.
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Posted April 23, 2020.
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Identification of potential treatments for COVID-19 through artificial intelligence-enabled phenomic analysis of human cells infected with SARS-CoV-2
Katie Heiser, Peter F. McLean, Chadwick T. Davis, Ben Fogelson, Hannah B. Gordon, Pamela Jacobson, Brett Hurst, Ben Miller, Ronald W. Alfa, Berton A. Earnshaw, Mason L. Victors, Yolanda T. Chong, Imran S. Haque, Adeline S. Low, Christopher C. Gibson
bioRxiv 2020.04.21.054387; doi: https://doi.org/10.1101/2020.04.21.054387
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Identification of potential treatments for COVID-19 through artificial intelligence-enabled phenomic analysis of human cells infected with SARS-CoV-2
Katie Heiser, Peter F. McLean, Chadwick T. Davis, Ben Fogelson, Hannah B. Gordon, Pamela Jacobson, Brett Hurst, Ben Miller, Ronald W. Alfa, Berton A. Earnshaw, Mason L. Victors, Yolanda T. Chong, Imran S. Haque, Adeline S. Low, Christopher C. Gibson
bioRxiv 2020.04.21.054387; doi: https://doi.org/10.1101/2020.04.21.054387

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