Journal: Nature communications

Article Title: Circadian clock molecule REV-ERBα regulates lung fibrotic progression through collagen stabilization.

doi: 10.1038/s41467-023-36896-0

Figure Lengend Snippet: Fig. 1 | Decreased REV-ERBα protein abundance and increased protein levels of COL1A1 and LOX in IPF lungs compared to healthy control. Healthy control and IPF formalin fixed-paraffin embedded (FFPE) lung samples were purchased from Origene Inc. Healthy controls contained 100% normal lung architecture with 85% alveoli surface area. IPF patient samples contained at least 50% lesion surface area. The protein abundance of REV-ERBα, COL1A1, and LOX were visualized and

Article Snippet: Compared to the control groups, the protein abundanceof REV-ERBαwas decreased in the healthy area (Control: 21.294%vs. healthy area from IPF: 11.296%) Fig. 1 | Decreased REV-ERBα protein abundance and increasedprotein levels of COL1A1 and LOX in IPF lungs compared to healthy control.Healthy control and IPF formalin fixed-paraffin embedded (FFPE) lung samples were purchased from Origene Inc.

Techniques: Quantitative Proteomics, Control

Journal: Nature communications

Article Title: Circadian clock molecule REV-ERBα regulates lung fibrotic progression through collagen stabilization.

doi: 10.1038/s41467-023-36896-0

Figure Lengend Snippet: Fig. 7 | IAV infection induced dysregulation of profibrotic progression exa- cerbated in Rev-erbα Het mice. WT and Rev-erbα Het mice (equal number of male and female) infected (103 PFU/mouse) with IAV for 15 days, and lungs were sepa- rated for RNA/protein isolation, or fixed with 10% formalin for FFPE sections. a The protein abundance of COL1A2, VIM and activated LOX were measured by western blot. Representative blot images were shown. Different targets were run on the same membrane: COL1A2, VIM and activated LOX were probed in the same membrane and β-ACTIN was used as an endogenous control (n = 5–6 mice per group). b The localizations of COL1A1 and LOX were determined by

Article Snippet: Compared to the control groups, the protein abundanceof REV-ERBαwas decreased in the healthy area (Control: 21.294%vs. healthy area from IPF: 11.296%) Fig. 1 | Decreased REV-ERBα protein abundance and increasedprotein levels of COL1A1 and LOX in IPF lungs compared to healthy control.Healthy control and IPF formalin fixed-paraffin embedded (FFPE) lung samples were purchased from Origene Inc.

Techniques: Infection, Isolation, Quantitative Proteomics, Western Blot, Membrane, Control

Journal: Journal of medical virology

Article Title: Bidirectional transfer of human cytomegalovirus strains in donor and recipient seropositive lung transplant patients.

doi: 10.1002/jmv.29770

Figure Lengend Snippet: FIGURE 1 HCMV genotypes present in pre‐Tx donor (D) and recipient (R) lung tissue and post‐Tx emergence in D + R + LTR. (A) HCMV DNA loads in pre‐Tx D and R lung FFPE sections, in post‐Tx follow‐up plasma and BAL samples, and in the cellular subsets of the BAL. Red circles indicate samples that underwent HCMV genotyping. Gray bars show the period under antiviral therapy. (B) CD45 + BAL cells were further sorted for CD163 and CD14 expression, distinguishing between CD14 + CD163‐ (left upper gate), CD14 + CD163+ (right upper gate) and CD14−cells (left lower gate). Red squares indicate HCMV‐DNA positive cell subsets. (C) Schematic illustration of the D and R FFPE blocks with the number of sections investigated. HCMV‐DNA positive slides are dark green and red circles indicate the slides positive for HCMV genotyping. (D) Relative frequency of the genotype‐specific reads in the indicated post‐Tx samples. BAL, bronchoalveolar lavage; d, day; FFPE, formalin‐fixed paraffin‐embedded; gN, gO, glycoprotein N, O; LTR, lung transplant recipient; Tx, transplantation; UL, unique long.

Article Snippet: From the FFPE tissue sections DNA was extracted using the FavorPrep FFPE DNA Extraction Micro Kit (Favorgen) according to manufacturer's protocol, while DNA was eluted with 36 μL of preheated elution buffer giving about 30 μL final volume.

Techniques: Clinical Proteomics, Expressing, Formalin-fixed Paraffin-Embedded, Transplantation Assay

Journal: Journal of medical virology

Article Title: Bidirectional transfer of human cytomegalovirus strains in donor and recipient seropositive lung transplant patients.

doi: 10.1002/jmv.29770

Figure Lengend Snippet: FIGURE 2 HCMV genotypes present in pre‐Tx recipient lung tissue and post‐Tx emergence in D + R + LTR. (A) HCMV DNA loads in R pre‐Tx lung FFPE sections, in post‐Tx follow‐up plasma and BAL samples, and in the cellular subsets of the BAL. Red circles indicate samples that underwent HCMV genotyping. Gray bars show the period under antiviral therapy. (B) CD45 + BAL cells were further sorted for CD163 and CD14 expression, distinguishing between CD14 + CD163−(left upper gate), CD14+ CD163+ (right upper gate) and CD14−cells (left lower gate). Red squares indicate HCMV‐DNA positive cell subsets. (C) Schematic illustration of the D and R FFPE blocks with number of sections investigated. HCMV‐DNA positive slides are dark green and red circles indicate the slides positive for HCMV genotyping. (D) Relative frequency of the genotype‐specific reads in the indicated post‐Tx samples. BAL, bronchoalveolar lavage; d, day; D, donor; FFPE, formalin‐fixed paraffin‐ embedded; gN, gO, glycoprotein N, O; LTR, lung transplant recipient; R, recipient; Tx, transplantation; UL, unique long.

Article Snippet: From the FFPE tissue sections DNA was extracted using the FavorPrep FFPE DNA Extraction Micro Kit (Favorgen) according to manufacturer's protocol, while DNA was eluted with 36 μL of preheated elution buffer giving about 30 μL final volume.

Techniques: Clinical Proteomics, Expressing, Formalin-fixed Paraffin-Embedded, Transplantation Assay