ACE2 correlates with immune infiltrates in colon adenocarcinoma: Implication for COVID-19
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SciScore for 10.1101/2020.06.11.146878: (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. Table 2: Resources
Software and Algorithms Sentences Resources Expression analysis: The expression levels of the human ACE2 gene in the colon cancer and corresponding control tissues in the TCGA-COAD (Colon Adenocarcinoma) cohort, were assessed by the Gene Expression Profiling Interactive Analysis (GEPIA) 2 (http://gepia2.cancer-pku.cn/#analysis) database (25) Gene Expression Profiling Interactive Analysissuggested: (Gene Expression Profiling Interactive Analysis, RRID:SCR_018294)Confirmatory/Discovery dataset through UALCAN … SciScore for 10.1101/2020.06.11.146878: (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. Table 2: Resources
Software and Algorithms Sentences Resources Expression analysis: The expression levels of the human ACE2 gene in the colon cancer and corresponding control tissues in the TCGA-COAD (Colon Adenocarcinoma) cohort, were assessed by the Gene Expression Profiling Interactive Analysis (GEPIA) 2 (http://gepia2.cancer-pku.cn/#analysis) database (25) Gene Expression Profiling Interactive Analysissuggested: (Gene Expression Profiling Interactive Analysis, RRID:SCR_018294)Confirmatory/Discovery dataset through UALCAN (http://ualcan.path.uab.edu/analysis-prot.html) database (26). UALCANsuggested: (UALCAN, RRID:SCR_015827)KEGG) pathway analysis for these co-expressed genes were obtained from the Enrichr (http://amp.pharm.mssm.edu/Enrichr) database (30). p-value less than 0.05 was set as a cut off criterion. KEGGsuggested: (KEGG, RRID:SCR_012773)Immune cell infiltration analysis: We utilized the CIBERSORT algorithm through TIMER 2.0 database (http://timer.cistrome.org/) (31) to evaluate the correlation of the ACE2 expression with immune cells infiltration in COAD, including CD8+ T cell, activated Memory CD4+T cell, resting Memory CD4+T cell, Naive CD4+ T cell, Regulatory T cell (Tregs), Follicular helper T cell, Gamma delta T cell, Memory B cell, Naive B cell, Plasma B cell, Neutrophils, Monocytes, Eosinophils, M0 Macrophages, M1 Macrophages, M2 Macrophages, activated Myeloid Dendritic Cell (DC), resting Myeloid DC, TIMERsuggested: (TIMER, RRID:SCR_018737)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.
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