1. SciScore for 10.1101/225151: (What is this?)

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

    Table 1: Rigor

    Ethicsnot detected.
    Sex as a biological variablenot detected.
    Randomizationnot detected.
    Blindingnot detected.
    Power Analysisnot detected.
    Cell Line AuthenticationAuthentication: Genome site constructs were made by Gibson assembly into SpeI-KpnI digested pOSIP KH or pOSIP KO from Pierre et al [19], followed by genome integration and pE-FLP excision protocol as described.

    Table 2: Resources

    Recombinant DNA
    SentencesResources
    Genome site constructs were made by Gibson assembly into SpeI-KpnI digested pOSIP KH or pOSIP KO from Pierre et al [19], followed by genome integration and pE-FLP excision protocol as described.
    pE-FLP
    suggested: RRID:Addgene_45978)
    dCas9 was amplified from pAN-PTet-dCas9, which was a gift from Christopher Voigt (Addgene plasmid # 62244) [20].
    pAN-PTet-dCas9
    suggested: RRID:Addgene_62244)
    n, CinR, and pBAD were amplified from source material with primers to add BsaI cut sites using compatible sequences [21] before being used for assembly.
    pBAD
    suggested: RRID:Addgene_105665)
    Sequencing: PCR products for pF1 constructs were obtained using pASS_pF1F: aaaCACCTGCaaaaTTACGGCGTATCACGAGGCAGAAT and pASS_genR: aaaCACCTGCaaaaCCTGGTACAGACAGGAGCTGCGTT.
    pF1
    suggested: RRID:Addgene_34515)
    PCR products for pF2 constructs were obtained with pASS_pF2F: aaaCACCTGCaaaaTTACCGGTATCAACAGGGACACC and pASS_genR as above.
    pF2
    suggested: RRID:Addgene_42520)
    pASS_genR
    suggested: None
    Software and Algorithms
    SentencesResources
    Loading on MinION R9.4 flow cell proceeded as per manufacturer recommendations.
    MinION
    suggested: (MinION, RRID:SCR_017985)

    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.


    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.

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