Genome-wide CRISPR activation screen identifies candidate receptors for SARS-CoV-2 entry
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SciScore for 10.1101/2021.04.08.438924: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Institutional Review Board Statement not detected. Randomization not detected. Blinding not detected. Power Analysis not detected. Sex as a biological variable not detected. Cell Line Authentication Contamination: All cells were routinely checked to confirm the absence of mycoplasma contamination. Table 2: Resources
Antibodies Sentences Resources Bound proteins were eluted from the beads using the elute buffer [25 mM Tris pH 8.0, 150 mM NaCl, 0.1% (w/v) DDM, 0.01% (w/v) CHS, and 250 ng/mL Flag peptide], and analyzed by immunoblotting using antibodies for the Strep tag (HuaxingBio, HX1816) or His tag (TransGen, HT501) HT501suggested: (Transgen Biotech Cat# HT501, RRID:AB_2801417)The results were analyzed by … SciScore for 10.1101/2021.04.08.438924: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Institutional Review Board Statement not detected. Randomization not detected. Blinding not detected. Power Analysis not detected. Sex as a biological variable not detected. Cell Line Authentication Contamination: All cells were routinely checked to confirm the absence of mycoplasma contamination. Table 2: Resources
Antibodies Sentences Resources Bound proteins were eluted from the beads using the elute buffer [25 mM Tris pH 8.0, 150 mM NaCl, 0.1% (w/v) DDM, 0.01% (w/v) CHS, and 250 ng/mL Flag peptide], and analyzed by immunoblotting using antibodies for the Strep tag (HuaxingBio, HX1816) or His tag (TransGen, HT501) HT501suggested: (Transgen Biotech Cat# HT501, RRID:AB_2801417)The results were analyzed by immunoblotting using antibodies for the Flag tag (SIGMA, SLCD6338). Flag tag (SIGMA, SLCD6338suggested: NoneExperimental Models: Cell Lines Sentences Resources Cell culture: The HEK293T cell line was from EdiGene Inc., and Huh 7.5 cell line was from S. HEK293Tsuggested: NCBI_Iran Cat# C498, RRID:CVCL_0063)CRISPRa screening for SARS-CoV-2 entry factors: The HEK293T cells were engineered to stably express the CRISPRa system including lenti dCAS-VP64_Blast and lenti MS2-P65-HSF1_Hygro vectors, termed as HEK293T-CRISPRa cells. HEK293T-CRISPRasuggested: NoneStrep-tagged S6P spike protein was expressed in the HEK293F cells and purified as described previously (50). HEK293Fsuggested: RRID:CVCL_6642)Software and Algorithms Sentences Resources GO enrichment and expression pattern analysis: The Gene Ontology (GO) enrichment analysis of identified host factors (RRA score < 0.001) was performed using Metascape Resource (32). Metascapesuggested: (Metascape, RRID:SCR_016620)Statistical analysis: Statistical analysis of all data apart from CRISPRa screening was performed using GraphPad Prism software. GraphPad Prismsuggested: (GraphPad Prism, RRID:SCR_002798)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 found bar graphs of continuous data. We recommend replacing bar graphs with more informative graphics, as many different datasets can lead to the same bar graph. The actual data may suggest different conclusions from the summary statistics. For more information, please see Weissgerber et al (2015).
Results from JetFighter: Please consider improving the rainbow (“jet”) colormap(s) used on pages 10 and 22. At least one figure is not accessible to readers with colorblindness and/or is not true to the data, i.e. not perceptually uniform.
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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