The in vitro antiviral activity of the anti-hepatitis C virus (HCV) drugs daclatasvir and sofosbuvir against SARS-CoV-2

Article activity feed

1. 

   Version published to 10.1101/2020.06.15.153411v2 on bioRxiv

   Oct 16, 2020
2. 

   ScreenIT

   Jun 17, 2020

   SciScore for 10.1101/2020.06.15.153411: (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

   Antibodies
   Sentences	Resources
   The purity of human monocytes was above 95%, as determined by flow cytometric analysis (FACScan; Becton Dickinson) using anti-CD3 (BD Biosciences) and anti-CD16 (Southern Biotech) monoclonal antibodies.	anti-CD3 suggested: None anti-CD16 suggested: None
   Experimental Models: Cell Lines
   Sentences	Resources
   The materials for cell culture were purchased from Thermo Scientific Life Sciences (Grand Island, NY), unless otherwise mentioned. 4.2. Cells and Virus: African green monkey kidney (Vero, subtype E6) and, human hepatoma (Huh-7), human lung epithelial cell lines (A549 and Calu-3) cells were cultured in high …

   SciScore for 10.1101/2020.06.15.153411: (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

   Antibodies
   Sentences	Resources
   The purity of human monocytes was above 95%, as determined by flow cytometric analysis (FACScan; Becton Dickinson) using anti-CD3 (BD Biosciences) and anti-CD16 (Southern Biotech) monoclonal antibodies.	anti-CD3 suggested: None anti-CD16 suggested: None
   Experimental Models: Cell Lines
   Sentences	Resources
   The materials for cell culture were purchased from Thermo Scientific Life Sciences (Grand Island, NY), unless otherwise mentioned. 4.2. Cells and Virus: African green monkey kidney (Vero, subtype E6) and, human hepatoma (Huh-7), human lung epithelial cell lines (A549 and Calu-3) cells were cultured in high glucose DMEM and human hepatoma lineage (Huh-7) in low glucose DMEM medium, both complemented with 10% fetal bovine serum (FBS; HyClone, Logan, Utah), 100 U/mL penicillin and 100 μg/mL streptomycin (Pen/Strep; ThermoFisher) at 37 °C in a humidified atmosphere with 5% CO2.	Huh-7 suggested: None Calu-3 suggested: KCLB Cat# 30055, RRID:CVCL_0609)
   Yield-reduction assay: Unless otherwise mentioned, Vero E6 cells were infected with a multiplicity of infection (MOI) of 0.01.	Vero E6 suggested: RRID:CVCL_XD71)
   , −7, A549 and Calu-3) or 5 days (NSCs) supernatants were collected and harvested virus was quantified by PFU/mL or real time RT-PCR.	A549 suggested: NCI-DTP Cat# A549, RRID:CVCL_0023)
   Effective permeability of daclatasvir was scaled from apparent permeability from PAMPA (due to lack of available data, it was assumed the same in Caco-2 cells) using the in vitro – in vivo extrapolation[49,50] to compute the absorption rate from the small intestine.	Caco-2 suggested: None
   Software and Algorithms
   Sentences	Resources
   4.1. Reagents: The antivirals RDV and LPV/RTV (4:1 proportion) was pruchased from Selleckhem (https://www.selleckchem.com/).	https://www.selleckchem.com/ suggested: (Selleck Chemicals LLC, RRID:SCR_003823)
   ELISA assays were purchased from R&D Bioscience.	R&D Bioscience suggested: (UMD Bioprocess Scale-Up Facility, RRID:SCR_012703)
   Next, aligned therough clustalW, usina the Mega 7.0 software. 4.9. TUNEL (Terminal deoxynucleotidyl transferase-mediated biotinylated UTP Nick End Labelling):	clustalW suggested: (ClustalW, RRID:SCR_017277)
   4.11 PBPK model: DCV whole-body PBPK model was constructed in Python 3.5 (in PyCharm 20.1.2 (Communtiy edition) using packages – numpy v1.18.5, scipy v1.0.1 and matplotlib v2.1.2) which consists of various compartments representing all the organs and tissues of the body.	Python suggested: (IPython, RRID:SCR_001658) PyCharm suggested: (PyCharm, RRID:SCR_018221) numpy suggested: (NumPy, RRID:SCR_008633) scipy suggested: (SciPy, RRID:SCR_008058) matplotlib suggested: (MatPlotLib, RRID:SCR_008624)
   The dose-response curves used to calculate EC50 and CC50 values were generated by variable slope plot from Prism GraphPad software 8.0.	Prism GraphPad suggested: None

   ---

   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: Please consider improving the rainbow (“jet”) colormap(s) used on page 31. At least one figure is not accessible to readers with colorblindness and/or is not true to the data, i.e. not perceptually uniform.

   ---

   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.

   ---

   Read the original source
3. 

   Version published to 10.1101/2020.06.15.153411v1 on bioRxiv

   Jun 16, 2020