Structural analysis of receptor binding domain mutations in SARS-CoV-2 variants of concern that modulate ACE2 and antibody binding
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SciScore for 10.1101/2021.08.25.457711: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Ethics not detected. Sex as a biological variable not detected. Randomization not detected. Blinding not detected. Power Analysis not detected. Cell Line Authentication not detected. Table 2: Resources
Experimental Models: Cell Lines Sentences Resources Expi293 cells were transfected at a density of 3 x 10^6 cells/mL using linear polyethylenimine (Polysciences Cat# 23966-1). Expi293suggested: RRID:CVCL_D615)Recombinant DNA Sentences Resources Antibodies: Recombinant proteins: Cell lines: Recombinant DNA and Oligonucleotides: Software and Algorithms: Method details: Cloning, Expression and Purification of Recombinant Spike Protein Constructs: The wild type SARS-CoV-2 S HexaPro expression plasmid was previously … SciScore for 10.1101/2021.08.25.457711: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Ethics not detected. Sex as a biological variable not detected. Randomization not detected. Blinding not detected. Power Analysis not detected. Cell Line Authentication not detected. Table 2: Resources
Experimental Models: Cell Lines Sentences Resources Expi293 cells were transfected at a density of 3 x 10^6 cells/mL using linear polyethylenimine (Polysciences Cat# 23966-1). Expi293suggested: RRID:CVCL_D615)Recombinant DNA Sentences Resources Antibodies: Recombinant proteins: Cell lines: Recombinant DNA and Oligonucleotides: Software and Algorithms: Method details: Cloning, Expression and Purification of Recombinant Spike Protein Constructs: The wild type SARS-CoV-2 S HexaPro expression plasmid was previously described (Hsieh et al. 2020) and was a gift from Jason McLellan (Addgene plasmid #154754; http://n2t.net/addgene:154754; RRID:Addgene_154754). detected: RRID:Addgene_154754)Software and Algorithms Sentences Resources Image Processing: In general, all data processing was performed in cryoSPARC v. cryoSPARCsuggested: (cryoSPARC, RRID:SCR_016501)0.9.3 (Emsley et al., 2010), followed by iterative rounds of refinement in COOT and Phenix v. COOTsuggested: (Coot, RRID:SCR_014222)Model validation was performed using MolProbity (Chen et al., 2010). MolProbitysuggested: (MolProbity, RRID:SCR_014226)Figures were prepared using UCSF Chimera, UCSF ChimeraX v.1.1.1 (Goddard et al., 2018), and PyMOL (v.2.2 Schrodinger, LLC) 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 did not find any issues relating to the usage of bar graphs.
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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