COVID-19 severity associates with pulmonary redistribution of CD1c+ DCs and inflammatory transitional and nonclassical monocytes
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SciScore for 10.1101/2020.05.13.20100925: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Institutional Review Board Statement IRB: Ethics: This study was approved by the Research Ethics Committee from Hospital Universitario de La Princesa in the context of REINMUN-COVID and EDEPIMIC projects and it was carried out following the ethical principles established in the Declaration of Helsinki.
Consent: All included patients (or their representatives) were informed about the study and gave written informed consent.Randomization not detected. Blinding not detected. Power Analysis not detected. Sex as a biological variable not detected. Table 2: Resources
Antibodies Sentences Resources Flow cytometry reagents and data analysis: For phenotypical studies of cell populations present in peripheral whole … SciScore for 10.1101/2020.05.13.20100925: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Institutional Review Board Statement IRB: Ethics: This study was approved by the Research Ethics Committee from Hospital Universitario de La Princesa in the context of REINMUN-COVID and EDEPIMIC projects and it was carried out following the ethical principles established in the Declaration of Helsinki.
Consent: All included patients (or their representatives) were informed about the study and gave written informed consent.Randomization not detected. Blinding not detected. Power Analysis not detected. Sex as a biological variable not detected. Table 2: Resources
Antibodies Sentences Resources Flow cytometry reagents and data analysis: For phenotypical studies of cell populations present in peripheral whole blood, cells were incubated with a panel of different combinations of the following monoclonal antibodies: anti-human CD3-Pacific blue and PerCP-Cy5.5, CD19, CD56 PerCP-Cy5.5-, CD8-APC-Cy7, CXCR5-PE, CD14-PE, CD16-Pacific Blue, CD40-FITC, HLA-DR-APC-Cy7 and –APC, CD11c-Pacific Blue, CD1c-PE-Cy7, CD141-APC (Biolegend) and CD38-FITC, CD123-APC, CD20-PerCP_Cy5.5 and HLA-DR-APC (BD Becton Dickinson) for 30 min. anti-human CD3-Pacificsuggested: NonePerCP-Cy5.5suggested: NoneCD19suggested: (BioLegend Cat# 348805, RRID:AB_2889063)CD56suggested: NoneCD8-APC-Cy7suggested: NoneCXCR5-PEsuggested: NoneCD40-FITCsuggested: (Sigma-Aldrich Cat# SAB4700177, RRID:AB_10897459)HLA-DR-APC-Cy7suggested: NoneCD141-APCsuggested: NoneCD123-APCsuggested: (Miltenyi Biotec Cat# 130-090-901, RRID:AB_244209)CD20-PerCP_Cy5.5suggested: NoneIn the case of bronchoscopy samples from critical COVID-19 patients, we added anti-CD45-Pacific Orange mAbs (BioLegend) to the previously described antibody cocktails and performed an additional panel to analyze frequencies and distribution of CD3+ CD8+ and CD4+ T cell subsets defined by expression of CD38 and CXCR5 or HLA-DR, respectively. anti-CD45-Pacificsuggested: NoneCD3+suggested: NoneCD8+suggested: NoneCD38suggested: NoneCXCR5suggested: NoneHLA-DRsuggested: NoneSoftware and Algorithms Sentences Resources Individual and multiparametric analysis of flow cytometry data was performed using flowJo software (Tree Star) and tSNE. flowJosuggested: (FlowJo, RRID:SCR_008520)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: We detected the following sentences addressing limitations in the study:However, a number of limitations need to be discussed. This is a cross-sectional study design comparing severe COVID-19 patients, with two sets of controls: on the one hand mild/severe COVID-19 patients; and on the other hand non-COVID-19 healthy controls. Because of this cross-sectional nature any assessment of progression will require a confirmation in prospective follow-up studies. In addition, our study provides data on bronchoscopy infiltrates rather than bronchoalveolar lavage given the fragile status of COVID-19 patients with ARDS. Although bronchoscopies might not necessarily reflect the characteristics of infiltrates present in terminal bronchioles and alveoli, our data from two patients indicate that the composition of myeloid cells in the infiltrates obtained by these methods are comparable. On the other hand, our study did not directly address the protective versus detrimental function of DC during COVID-19 infection. In this sense, CD141+ cDCs are important for the priming of antiviral exhaustion in these individuals, similarly to what has been described in HIV+ individuals co-CD8+ T cell responses (14, 31) and are dramatically depleted from the blood in all COVID-19 patients regardless of their clinical status, but they are almost completely undetectable in bronchoscopy infiltrates from individuals developing severe ARDS. These data might support a defect on the priming, the maintenance or exhaustion of virus-specific CD8+ T cells in the lungs; however these iss...
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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