Graph Convolutional Network-Based Screening Strategy for Rapid Identification of SARS-CoV-2 Cell-Entry Inhibitors

Article activity feed

1. Version published to 10.1021/acs.jcim.2c00222

   Apr 11, 2022
2. 

   ScreenIT

   Dec 14, 2021

   SciScore for 10.1101/2021.12.08.471787: (What is this?)

   Please note, not all rigor criteria are appropriate for all manuscripts.

   Table 1: Rigor

   NIH rigor criteria are not applicable to paper type.

   Table 2: Resources

   Experimental Models: Cell Lines
   Sentences	Resources
   13 HEK293T cells were dispensed into black, clear-bottom 1536-well microplates (Greiner BioOne, # 789092-F)) at 5000cells/well in 5L media with 200nM pHrodo red-labeled a-Syn fibrils and incubated at 37°C, 5% CO2,	HEK293T suggested: None
   SARS-CoV-2 PP assay: HEK293T-ACE2-GFP cells seeded in white, solid bottom 384-well microplates	HEK293T-ACE2-GFP suggested: None
   Software and Algorithms
   Sentences	Resources
   Image processing and statistical analyses: Confocal images were processed using the Zeiss Zen software.	Zeiss Zen suggested: None
   To measure fluorescence intensity, we used the Fiji …

   SciScore for 10.1101/2021.12.08.471787: (What is this?)

   Please note, not all rigor criteria are appropriate for all manuscripts.

   Table 1: Rigor

   NIH rigor criteria are not applicable to paper type.

   Table 2: Resources

   Experimental Models: Cell Lines
   Sentences	Resources
   13 HEK293T cells were dispensed into black, clear-bottom 1536-well microplates (Greiner BioOne, # 789092-F)) at 5000cells/well in 5L media with 200nM pHrodo red-labeled a-Syn fibrils and incubated at 37°C, 5% CO2,	HEK293T suggested: None
   SARS-CoV-2 PP assay: HEK293T-ACE2-GFP cells seeded in white, solid bottom 384-well microplates	HEK293T-ACE2-GFP suggested: None
   Software and Algorithms
   Sentences	Resources
   Image processing and statistical analyses: Confocal images were processed using the Zeiss Zen software.	Zeiss Zen suggested: None
   To measure fluorescence intensity, we used the Fiji software.	Fiji suggested: (Fiji, RRID:SCR_002285)
   Statistical analyses were performed using either Excel or GraphPad Prism 9.	Excel suggested: None
   Nonlinear curve fitting and IC50 calculation was done with GraphPad Prism 9 using the inhibitor response three variable model or the exponential decay model.	GraphPad Prism suggested: (GraphPad Prism, RRID:SCR_002798)
   Images were prepared with Adobe Photoshop and assembled in Adobe Illustrator.	Adobe Photoshop suggested: (Adobe Photoshop, RRID:SCR_014199) Adobe Illustrator suggested: (Adobe Illustrator, RRID:SCR_010279)

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   Results from OddPub: We did not detect open data. We also did not detect open code. Researchers are encouraged to share open data when possible (see Nature blog).

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   Results from LimitationRecognizer: An explicit section about the limitations of the techniques employed in this study was not found. We encourage authors to address study limitations.

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   Results from TrialIdentifier: No clinical trial numbers were referenced.

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   Results from Barzooka: We did not find any issues relating to the usage of bar graphs.

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   Results from JetFighter: Please consider improving the rainbow (“jet”) colormap(s) used on page 28. At least one figure is not accessible to readers with colorblindness and/or is not true to the data, i.e. not perceptually uniform.

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   Results from rtransparent:

   • Thank you for including a conflict of interest statement. Authors are encouraged to include this statement when submitting to a journal.
   • Thank you for including a funding statement. Authors are encouraged to include this statement when submitting to a journal.
   • No protocol registration statement was detected.

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   Results from scite Reference Check: We found no unreliable references.

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   Read the original source
3. 

   Version published to 10.1101/2021.12.08.471787v1 on bioRxiv

   Dec 9, 2021