Remdesivir is a delayed translocation inhibitor of SARS CoV-2 replication in vitro

Article activity feed

1. 

   ScreenIT

   Dec 17, 2020

   SciScore for 10.1101/2020.12.14.422718: (What is this?)

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

   Table 1: Rigor

   Institutional Review Board Statement	not detected.
   Randomization	not detected.
   Blinding	not detected.
   Power Analysis	not detected.
   Sex as a biological variable	not detected.

   Table 2: Resources

   Software and Algorithms
   Sentences	Resources
   Peaks were integrated with GeneMapper 5 software (ThermoFisher).	GeneMapper suggested: (GeneMapper , RRID:SCR_014290)
   Images were recorded with SerialEM (Mastronarde, 2005), with a pixel size of 1.1Å over a defocus range of −1.5 to −2.5 μm.	SerialEM suggested: (SerialEM, RRID:SCR_017293)
   CTF correction, motion correction and particle picking were performed in real-time using WARP, resulting in 2,340,544 particles, which were uploaded to cryoSPARC v2 (Punjani et al., 2017).	WARP suggested…

   SciScore for 10.1101/2020.12.14.422718: (What is this?)

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

   Table 1: Rigor

   Institutional Review Board Statement	not detected.
   Randomization	not detected.
   Blinding	not detected.
   Power Analysis	not detected.
   Sex as a biological variable	not detected.

   Table 2: Resources

   Software and Algorithms
   Sentences	Resources
   Peaks were integrated with GeneMapper 5 software (ThermoFisher).	GeneMapper suggested: (GeneMapper , RRID:SCR_014290)
   Images were recorded with SerialEM (Mastronarde, 2005), with a pixel size of 1.1Å over a defocus range of −1.5 to −2.5 μm.	SerialEM suggested: (SerialEM, RRID:SCR_017293)
   CTF correction, motion correction and particle picking were performed in real-time using WARP, resulting in 2,340,544 particles, which were uploaded to cryoSPARC v2 (Punjani et al., 2017).	WARP suggested: (Warp, RRID:SCR_018071)
   Particles were subjected to multiple rounds of 3D classification in cryoSPARC, and a final set of 116,748 particles was refined to a global resolution of 3.89 Å based on the 0.143 FSC criterion.	cryoSPARC suggested: (cryoSPARC, RRID:SCR_016501)
   Non-proteinaceous molecules (i.e. RNA, ligands) were removed, and the template:primer duplex was built de novo in Coot (Emsley and Cowtan, 2004).	Coot suggested: (Coot, RRID:SCR_014222)
   Restraints for RMP were generated using eLBOW (Moriarty et al., 2009)), and structures were subjected to real-space refinement using Phenix (which resulted in a map-to-model FSC of 4.0Å at the 0.5 threshold) (Afonine et al., 2018).	Phenix suggested: (Phenix, RRID:SCR_014224)

   ---

   Results from OddPub: Thank you for sharing your data.

   ---

   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 did not find any issues relating to the usage of bar graphs.

   ---

   Results from JetFighter: Please consider improving the rainbow (“jet”) colormap(s) used on page 12. 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
2. 

   Version published to 10.1101/2020.12.14.422718v1 on bioRxiv

   Dec 16, 2020