Proteins associated with neutrophil degranulation are upregulated in nasopharyngeal swabs from SARS-CoV-2 patients

  1. Emel Akgun
  2. Mete Bora Tuzuner
  3. Betul Sahin
  4. Meltem Kilercik
  5. Canan Kulah
  6. Hacer Nur Cakiroglu
  7. Mustafa Serteser
  8. Ibrahim Unsal
  9. Ahmet Tarik Baykal

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Abstract

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  1. Version published to 10.1371/journal.pone.0240012
  2. ScreenIT

    SciScore for 10.1101/2020.05.14.20102558: (What is this?)

    Please note, not all rigor criteria are appropriate for all manuscripts.

    Table 1: Rigor

    Institutional Review Board StatementConsent: Informed consent was sought from each accepted to enter the study and ethical approval for the conduct of the study was given by Acibadem Mehmet Ali Aydinlar University Human Scientific and Ethical Review Committee (Approval ID: 2020–07/9). 2.2.
    IACUC: Informed consent was sought from each accepted to enter the study and ethical approval for the conduct of the study was given by Acibadem Mehmet Ali Aydinlar University Human Scientific and Ethical Review Committee (Approval ID: 2020–07/9). 2.2.
    Randomizationnot detected.
    Blindingnot detected.
    Power Analysisnot detected.
    Sex as a biological variablenot detected.

    Table 2: Resources

    Software and Algorithms
    SentencesResources
    Progenesis-QIP (V.2.4 Waters) was used for data processing. 2.4. PPI Network and Pathway Analysis: Protein-protein interaction networks functional enrichment analysis was carried out using the STRING (http://string-db.org/, v11.0) database with the highest confidence interaction score level to identify possible pathways related to the identified proteins.
    STRING
    suggested: (STRING, RRID:SCR_005223)
    REACTOME (http://www.reactome.org) pathways analysis tool was also used for processing.
    REACTOME
    suggested: (Reactome, RRID:SCR_003485)

    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.

    About SciScore

    SciScore is an automated tool that is designed to assist expert reviewers by finding and presenting formulaic information scattered throughout a paper in a standard, easy to digest format. SciScore checks for the presence and correctness of RRIDs (research resource identifiers), and for rigor criteria such as sex and investigator blinding. For details on the theoretical underpinning of rigor criteria and the tools shown here, including references cited, please follow this link.

  3. Version published to 10.1101/2020.05.14.20102558v1 on medRxiv