Cross-Sectional Evaluation of Humoral Responses against SARS-CoV-2 Spike

Version published to 10.1016/j.xcrm.2020.100126

Oct 1, 2020

SciScore for 10.1101/2020.06.08.140244: (What is this?)

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

Table 1: Rigor

Institutional Review Board Statement	Consent: Ethics statement: All work was conducted in accordance with the Declaration of Helsinki in terms of informed consent and approval by an appropriate institutional board.
Randomization	not detected.
Blinding	not detected.
Power Analysis	not detected.
Sex as a biological variable	not detected.
Cell Line Authentication	not detected.

Table 2: Resources

Antibodies
Sentences	Resources
Alexa Fluor-647-conjugated goat anti-human IgG (H+L) Abs (Invitrogen) were used as secondary antibodies to detect sera binding in flow cytometry experiment.	anti-human IgG suggested: None
Experimental Models: Cell Lines
Sentences	Resources
293T-ACE2 cells were then cultured in a medium supplemented …

SciScore for 10.1101/2020.06.08.140244: (What is this?)

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

Table 1: Rigor

Institutional Review Board Statement	Consent: Ethics statement: All work was conducted in accordance with the Declaration of Helsinki in terms of informed consent and approval by an appropriate institutional board.
Randomization	not detected.
Blinding	not detected.
Power Analysis	not detected.
Sex as a biological variable	not detected.
Cell Line Authentication	not detected.

Table 2: Resources

Antibodies
Sentences	Resources
Alexa Fluor-647-conjugated goat anti-human IgG (H+L) Abs (Invitrogen) were used as secondary antibodies to detect sera binding in flow cytometry experiment.	anti-human IgG suggested: None
Experimental Models: Cell Lines
Sentences	Resources
293T-ACE2 cells were then cultured in a medium supplemented with 2 μg/ml of puromycin (Sigma).	293T-ACE2 suggested: RRID:CVCL_YZ65)
Flow cytometry analysis of cell-surface staining: Using the standard calcium phosphate method, 10μg of Spike expressor and 2μg of a green fluorescent protein (GFP) expressor (pIRES-GFP) was transfected into 2 × 106 293T cells.	293T suggested: NCBI_Iran Cat# C498, RRID:CVCL_0063)
Software and Algorithms
Sentences	Resources
Samples were acquired on a LSRII cytometer (BD Biosciences, Mississauga, ON, Canada) and data analysis was performed using FlowJo vX.	FlowJo suggested: (FlowJo, RRID:SCR_008520)
Dendrograms were calculated using the dendPlot function and hclust method, or as implemented in the heatmap package in R.	hclust suggested: (HCLUST, RRID:SCR_009154)
Chord diagrams were generated in R and R Studio based on the circlize and ComplexHeatmap package, as recently described.	circlize suggested: (circlize, RRID:SCR_002141) ComplexHeatmap suggested: (ComplexHeatmap, RRID:SCR_017270)
Forrest plots and calculations of fold change, significance (Mann-Whitney) and adjusted P values (Holm-Sidak) were done using Excel and Prism v8.2.0.	Excel suggested: None Prism suggested: (PRISM, RRID:SCR_005375)
The confidence interval of a quotient of two means was calculated based on the Fieller method using GraphPad QuickCalcs.	GraphPad suggested: (GraphPad Prism, RRID:SCR_002798)
Statistical analyses: Statistics were analyzed using GraphPad Prism version 8.0.2 (GraphPad, San Diego, CA, (USA).	GraphPad Prism suggested: (GraphPad Prism, RRID:SCR_002798)

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.

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Cross-Sectional Evaluation of Humoral Responses against SARS-CoV-2 Spike

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