The impact of viral mutations on recognition by SARS-CoV-2 specific T cells
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SciScore for 10.1101/2021.04.08.438904: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Institutional Review Board Statement IRB: Ex vivo IFN-γ ELISpots in SARS-CoV-2 recovered donors: Cryopreserved PBMCs were used from SARS-CoV-2 recovered donors recruited into the Sepsis Immunomics study with ethical approval from the South Central -Oxford C Research Ethics Committee in England (Ref 13/SC/0149). Randomization First, one sequence per country per epi week was selected randomly, followed by random sampling of the remaining sequences to generate a sample of 4000 down-sampled sequences. Blinding not detected. Power Analysis not detected. Sex as a biological variable not detected. Table 2: Resources
Software and Algorithms Sentences Resources Each sequence was translated and compared to reference … SciScore for 10.1101/2021.04.08.438904: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Institutional Review Board Statement IRB: Ex vivo IFN-γ ELISpots in SARS-CoV-2 recovered donors: Cryopreserved PBMCs were used from SARS-CoV-2 recovered donors recruited into the Sepsis Immunomics study with ethical approval from the South Central -Oxford C Research Ethics Committee in England (Ref 13/SC/0149). Randomization First, one sequence per country per epi week was selected randomly, followed by random sampling of the remaining sequences to generate a sample of 4000 down-sampled sequences. Blinding not detected. Power Analysis not detected. Sex as a biological variable not detected. Table 2: Resources
Software and Algorithms Sentences Resources Each sequence was translated and compared to reference (MN908947.3) using custom python scripts (Python 3.7.6) utilising Biopython (version 1.78). Pythonsuggested: (IPython, RRID:SCR_001658)Biopythonsuggested: (Biopython, RRID:SCR_007173)Results from OddPub: Thank you for sharing your code and 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: 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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