Transcriptome profiling of different types of human respiratory tract cells infected by SARS-CoV-2 highlight an unique role for inflammatory and interferon response
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SciScore for 10.1101/2020.11.15.383927: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
NIH rigor criteria are not applicable to paper type.Table 2: Resources
Software and Algorithms Sentences Resources Study Search and RNA-Seq data collection: We searched for RNA-Seq experiments deposited in the Gene Expression Omnibus (GEO) database and NCBI Pubmed related to SARS-CoV-2 infection in different types of human respiratory tract cells (Calu-3, doi:10.3390/biology9090260; ACE2-A549,GSE154613; a lung organoid model driving by human pluripotent stem cells, GSE155241; Primary human bronchial epithelial cells, GSE150819) which carried out in human cells (ex vivo) or human cell lines (in vitro). Gene Expression Omnibussuggested: (Gene Expression Omnibus (GEO, RRID:SCR_005012)Pubmedsuggested: …SciScore for 10.1101/2020.11.15.383927: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
NIH rigor criteria are not applicable to paper type.Table 2: Resources
Software and Algorithms Sentences Resources Study Search and RNA-Seq data collection: We searched for RNA-Seq experiments deposited in the Gene Expression Omnibus (GEO) database and NCBI Pubmed related to SARS-CoV-2 infection in different types of human respiratory tract cells (Calu-3, doi:10.3390/biology9090260; ACE2-A549,GSE154613; a lung organoid model driving by human pluripotent stem cells, GSE155241; Primary human bronchial epithelial cells, GSE150819) which carried out in human cells (ex vivo) or human cell lines (in vitro). Gene Expression Omnibussuggested: (Gene Expression Omnibus (GEO, RRID:SCR_005012)Pubmedsuggested: (PubMed, RRID:SCR_004846)Functional analysis of differential expressed genes: The Go terms enrichment, KEGG pathways and protein-protein interaction analysis of the DEGs were performed using OmicsBean (http://www.omicsbean.cn) and Cytoscape v. KEGGsuggested: (KEGG, RRID:SCR_012773)OmicsBeansuggested: (OmicsBean, RRID:SCR_016322)Cytoscapesuggested: (Cytoscape, RRID:SCR_003032)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.
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