Drug-Repurposing Screening Identified Tropifexor as a SARS-CoV-2 Papain-like Protease Inhibitor
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SciScore for 10.1101/2021.12.02.471030: (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 For transfection, 293T cells were seeded into 96-well Greiner plate (catalog no. 655090) to overnight with 70-90% confluency. 293Tsuggested: NoneRecombinant DNA Sentences Resources Then the SARS-CoV PLpro gene (ORF 1ab 1541-1855) was subcloned from the pET28b-(+) to pE-SUMO vector according to the manufacturer’s protocol (LifeSensors Inc., Malvern, PA). pE-SUMOsuggested: RRID:Addgene_80754)Cell-Based FlipGFP PLpro Assay: Plasmid pcDNA3-PLpro-flipGFP-T2A-mCherry was constructed from pcDNA3-TEV-flipGFP-T2A-mCherry.15 SARS-CoV-2 PLpro expression plasmid pcDNA3.1-SARS2 PLpro was ordered … SciScore for 10.1101/2021.12.02.471030: (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 For transfection, 293T cells were seeded into 96-well Greiner plate (catalog no. 655090) to overnight with 70-90% confluency. 293Tsuggested: NoneRecombinant DNA Sentences Resources Then the SARS-CoV PLpro gene (ORF 1ab 1541-1855) was subcloned from the pET28b-(+) to pE-SUMO vector according to the manufacturer’s protocol (LifeSensors Inc., Malvern, PA). pE-SUMOsuggested: RRID:Addgene_80754)Cell-Based FlipGFP PLpro Assay: Plasmid pcDNA3-PLpro-flipGFP-T2A-mCherry was constructed from pcDNA3-TEV-flipGFP-T2A-mCherry.15 SARS-CoV-2 PLpro expression plasmid pcDNA3.1-SARS2 PLpro was ordered from Genscript (Piscataway NJ) with codon optimization. pcDNA3-PLpro-flipGFP-T2A-mCherrysuggested: NonepcDNA3-TEV-flipGFP-T2A-mCherry.15 SARS-CoV-2 PLprosuggested: NonepcDNA3.1-SARS2suggested: None50 ng of pcDNA3-PLPro-flipGFP-T2A-mCherry plasmid and 50 ng of protease expression plasmid pcDNA3.1-PLpro were added to each well in the presence of transfection reagent TransIT-293 (Mirus) according to manufacturer’s protocol. pcDNA3.1-PLprosuggested: NoneSoftware and Algorithms Sentences Resources Images were acquired 2 days after transfection with a Cytation 5 imaging reader (Biotek) GFP and mCherry channels and were analyzed with Gen5 3.10 software (Biotek). Gen5suggested: (Gen5, RRID:SCR_017317)The final docking poses were generated in PyMOL. PyMOLsuggested: (PyMOL, RRID:SCR_000305)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).
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.Results from TrialIdentifier: No clinical trial numbers were referenced.
Results from Barzooka: We found bar graphs of continuous data. We recommend replacing bar graphs with more informative graphics, as many different datasets can lead to the same bar graph. The actual data may suggest different conclusions from the summary statistics. For more information, please see Weissgerber et al (2015).
Results from JetFighter: We did not find any issues relating to colormaps.
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.
Results from scite Reference Check: We found no unreliable references.
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