Distinctive features of SARS-CoV-2-specific T cells predict recovery from severe COVID-19
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SciScore for 10.1101/2021.01.22.21250054: (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
No key resources detected.
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: We detected the following sentences addressing limitations in the study:Limitations: Our study has limitations. To enable deep-phenotyping of SARS-CoV-2-specific T cells, we had to characterize a relatively small cohort of 34 infected individuals. This may have accounted for our inability to detect sex-based differences. A second limitation was our use of peptide stimulation to identify SARS-CoV-2-specific …
SciScore for 10.1101/2021.01.22.21250054: (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
No key resources detected.
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: We detected the following sentences addressing limitations in the study:Limitations: Our study has limitations. To enable deep-phenotyping of SARS-CoV-2-specific T cells, we had to characterize a relatively small cohort of 34 infected individuals. This may have accounted for our inability to detect sex-based differences. A second limitation was our use of peptide stimulation to identify SARS-CoV-2-specific cells. The phenotypes of our SARS-CoV-2-specific T cells therefore correspond to those immediately following antigen encounter, rather than at baseline. Importantly, however, we did not compare the phenotypes of baseline cells to SARS-CoV-2-specific ones, as such a comparison would include artifacts resulting from the stimulation. Instead, we always compared SARS-CoV-2-specific T cells between different patient groups. Future studies using tetramers will be needed to assess the phenotypes of baseline SARS-CoV-2-specific T cells along the entire spectrum of COVID-19 disease. Such studies, however, would be limited to analyzing responses against a small number of epitopes, and would be for the most part limited to CD8+ T cells as tetramer reagents for CD4+ T cells are generally not reliable. A third limitation was our restricting analysis of SARS-CoV-2-specific T cells to those recognizing the spike protein, which elicits a limited CD8+ T cell response. Future studies should examine responses against proteins more commonly recognized by SARS-CoV-2-specific CD8+ T cells (Ferretti et al., 2020). Fourthly, this study was a phenotyping and correlativ...
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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