Clinical Performance of Direct RT-PCR Testing of Raw Saliva for Detection of SARS-CoV-2 in Symptomatic and Asymptomatic Individuals
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Abstract
The scale of the COVID-19 pandemic highlighted the need for viral diagnostic systems that are accurate and could be deployed at large population scales. Large-scale diagnostic or surveillance testing of large numbers of people requires collection of infected biological samples that is easy and rapid.
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SciScore for 10.1101/2022.05.15.22275086: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Ethics Consent: All individuals provided a signed informed consent, and the study was approved by the NUI Galway Research Ethics 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 WGS was performed using the Illumina NextSeq 500 platform with one positive control and one negative control. WGSsuggested: NoneThe raw reads were demultiplexed using bcl2fastq (v2.20). bcl2fastqsuggested: (bcl2fastq , RRID:SCR_015058)Briefly, the reads had adapters trimmed with TrimGalore17, and were aligned to the Wuhan Hu-1 reference genome (accession MN908947.3) using BWA-MEM (v0.7.17)18; the ARTIC … SciScore for 10.1101/2022.05.15.22275086: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Ethics Consent: All individuals provided a signed informed consent, and the study was approved by the NUI Galway Research Ethics 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 WGS was performed using the Illumina NextSeq 500 platform with one positive control and one negative control. WGSsuggested: NoneThe raw reads were demultiplexed using bcl2fastq (v2.20). bcl2fastqsuggested: (bcl2fastq , RRID:SCR_015058)Briefly, the reads had adapters trimmed with TrimGalore17, and were aligned to the Wuhan Hu-1 reference genome (accession MN908947.3) using BWA-MEM (v0.7.17)18; the ARTIC amplicons were trimmed and a consensus built using iVAR (v.1.3.0)19. BWA-MEMsuggested: (Sniffles, RRID:SCR_017619)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.
Results from scite Reference Check: We found no unreliable references.
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