Sample pooling for SARS-CoV-2 RT-PCR screening
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Abstract
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SciScore for 10.1101/2020.07.04.20146027: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Institutional Review Board Statement Consent: Given the deidentified nature of testing, individual patient consent was not required for this study. Randomization not detected. Blinding not detected. Power Analysis not detected. Sex as a biological variable not detected. 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:Our study’s main limitation was the variability upon extraction and amplification methods used, and the number of samples included …
SciScore for 10.1101/2020.07.04.20146027: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Institutional Review Board Statement Consent: Given the deidentified nature of testing, individual patient consent was not required for this study. Randomization not detected. Blinding not detected. Power Analysis not detected. Sex as a biological variable not detected. 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:Our study’s main limitation was the variability upon extraction and amplification methods used, and the number of samples included in the different pools tested; however, this limitation in the design may turn into its main strength given the consideration that even in this scenario our results were excellent. In the sample pooling strategy, it is a priority to determine the group size in which the maximum precision is maintained in the analysis performed, since, due to the dilution of the sample, this procedure can decrease the sensitivity of the molecular assays of RT- Real-time PCR “Optimization of group size in pool testing strategy for SARS-CoV-2: A simple mathematical model” (21). For this reason, before systematically implementing a sample grouping strategy, it is important to consider these characteristics (detection limit, sensitivity and specificity of the test) together with the expected prevalence; in this regard, there are already applications that allow it to be calculated (https://www.chrisbilder.com/shiny/). In addition, the main advantages of the pooling strategy are that it allows using the same standard protocols of commercial reagents, with no need of additional training, equipment or materials, and consequently it can be implemented immediately to expand the detection and surveillance capabilities of CoVID-19. It should be noted that pooling as a screening strategy will not completely eliminate the need for individual diagnostic tests, which will be essen...
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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