Comparative analysis of single cell lung atlas of bat, cat, tiger, and pangolin

  1. Xiran Wang
  2. Peiwen Ding
  3. Chengcheng Sun
  4. Daxi Wang
  5. Jiacheng Zhu
  6. Wendi Wu
  7. Yanan Wei
  8. Rong Xiang
  9. Xiangning Ding
  10. Lihua Luo
  11. Meiling Li
  12. Wensheng Zhang
  13. Xin Jin
  14. Jian Sun
  15. Huan Liu
  16. Dongsheng Chen

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Abstract

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  1. Version published to 10.1007/s10565-022-09771-9
  2. ScreenIT

    SciScore for 10.1101/2021.12.26.473325: (What is this?)

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

    Table 1: Rigor

    EthicsIRB: Ethical statement: Sample collection and research were performed with the approval of Institutional Review Board on Ethics Committee of BGI (Approval letter reference number BGI-NO.
    Field Sample Permit: The sampling procedures strictly followed the ‘Guidelines on Ethical Treatment of Experimental Animals’ established by the Ministry of Science and Technology, China. Sample collection and dissection: Bats used in this study were all male Rhinolophus sinicus (Chinese horseshoe bat) which were identified the species by the field experts, and obtained from Guangdong province, China, then dissected and stored in -80°C freezer immediately.
    Sex as a biological variableThe sampling procedures strictly followed the ‘Guidelines on Ethical Treatment of Experimental Animals’ established by the Ministry of Science and Technology, China. Sample collection and dissection: Bats used in this study were all male Rhinolophus sinicus (Chinese horseshoe bat) which were identified the species by the field experts, and obtained from Guangdong province, China, then dissected and stored in -80°C freezer immediately.
    Randomizationnot detected.
    Blindingnot detected.
    Power Analysisnot detected.

    Table 2: Resources

    Software and Algorithms
    SentencesResources
    After obtaining the single cell gene expression matrices, we used Seurat 3.2.224 to perform the downstream analysis.
    Seurat
    suggested: (SEURAT, RRID:SCR_007322)
    Cross-species data integration: To facilitate the comparation among four species, we first convert all genes of bats to the homogenous mouse genes using OrthoFinder26.
    OrthoFinder26
    suggested: None

    Results from OddPub: Thank you for sharing your data.

    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.

  3. Version published to 10.1101/2021.12.26.473325v1 on bioRxiv