A new SARS-CoV-2 variant with high lethality poorly detected by RT-PCR on nasopharyngeal samples: an observational study
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SciScore for 10.1101/2021.05.05.21256690: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Ethics IRB: The French infectious diseases society ethics committee (Comité d’Éthique de la Recherche en Maladies Infectieuses et Tropicales, CER-MIT) approved the study (N° COVID 2021-06).
Consent: Written informed consent was waived.Sex as a biological variable not detected. Randomization not detected. Blinding not detected. Power Analysis not detected. Table 2: Resources
Software and Algorithms Sentences Resources Since all cases with B.1.616 infection confirmed by WGS lived in the Lannion district, this place was considered as the epidemic area. WGSsuggested: NoneResults from OddPub: We did not detect open data. We also did not detect open code. Researchers are encouraged to share open data when possible …
SciScore for 10.1101/2021.05.05.21256690: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Ethics IRB: The French infectious diseases society ethics committee (Comité d’Éthique de la Recherche en Maladies Infectieuses et Tropicales, CER-MIT) approved the study (N° COVID 2021-06).
Consent: Written informed consent was waived.Sex as a biological variable not detected. Randomization not detected. Blinding not detected. Power Analysis not detected. Table 2: Resources
Software and Algorithms Sentences Resources Since all cases with B.1.616 infection confirmed by WGS lived in the Lannion district, this place was considered as the epidemic area. WGSsuggested: NoneResults 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:Our study has limitations. First, the small sample size and the retrospective design both limit the statistical power. However, due to the fast pace of the pandemic, early communication on the characteristics of new variants is warranted, and this would be the first case series of B.1.616-related COVID-19 cases. Second, B.1.616 confirmed cases where those in whom a deep respiratory sample was obtained, mostly motivated by disease severity, hence constituting a selection bias.. Finally, the selection of controls may be an additional limitation: VOC-related cases were selected as controls mostly because these cases could be reliably classified as ‘non-B.1.616’: indeed, other COVID-19 cases managed during the study period were no longer available for virological characterization, hence we could not rule out that they could be B.1.616. Of note, our VOC control group was mostly constituted by the B.1.1.7 variant, which is largely dominant in Western Europe, and has been associated with an increased mortality4. Hence, as B.1.616 cases were independently associated with worse outcomes as compared to VOC, this would probably be even more pronounced if compared with COVID-19 cases non-related to VOC. In addition, all consecutive cases with available VOC screening were enrolled in the control group, which limits selection bias.
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.
- No funding statement was detected.
- No protocol registration statement was detected.
Results from scite Reference Check: We found no unreliable references.
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