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6 protocols using protease k

1

Immunohistochemical Analysis of Nasal Mucosa

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For cross-sectional analysis, the nasal mucosal epithelial cell sheets were fixed with 10% neutral buffered formalin and routinely processed into 3 µm-thick paraffin-embedded sections. Hematoxylin and eosin (HE) staining was performed by conventional methods. For immunohistochemistry, de-paraffinized sections were washed with phosphate-buffered saline and digested with protease K (DakoCytomation, Glostrup, Denmark). Sections were then treated with each of the following antibodies according to the manufacturers’ suggested protocols: mouse monoclonal anti-pancytokeratin (1:20 dilution, AE1/AE3, Abcam, Cambridge, UK), mouse monoclonal anti-E-cadherin (1:100 dilution, NCH-38, DakoCytomation) and anti-p63 (1:100 dilution, V9, DakoCytomation).
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2

Histological and Immunohistochemical Analysis of Tissue

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The specimens were decalcified in 0.1M EDTA for 4 weeks. Upon decalcification, the specimens were washed, dehydrated, embedded in paraffin, and sectioned serially at 5 to 8 μm in the sagittal orientation by microtome. Sections were stained with hematoxylin and eosin (H&E) and Masson’s trichrome (MT). For the immunohistochemical (IHC) analysis, a thickness of 5 to 8 μm sections were deparaffinized, rehydrated, and rinsed with distilled water. For antigen retrieval, protease K (Dako, Carpinteria, CA, USA) was used in CD 31 (PECAM-1; Platelet endothelial cell adhesion molecule) and dentin sialoprotein (DSP) staining. After overnight incubation with the primary antibodies, the sections were incubated for 30 min with anti-CD31 antibody (Bioss Inc., Woburn, MA, USA) and anti-DSP antibody (MyBiosource, San Diego, CA, USA) and then stained with 3,3’–diaminobenzidine (DAB) for 15 min. All analyses were carried out by experienced and trained examiners, blinded to the allocation of the experimental groups.
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3

Immunohistochemical Analysis of Osteocalcin and Dentin Sialoprotein

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For immunohistochemistry (IHC), we deparaffinized 3-μm cross-sections with xylene, rehydrated them, and rinsed them with distilled water. For antigen retrieval, we used protease K (Dako North America Inc., Carpinteria, CA, USA) for osteocalcin (OC) and dentin sialoprotein (DSP) staining. To activate endogenous peroxidase, we added 3% hydrogen peroxide, while preventing non-specific binding by incubating sections in 5% bovine serum albumin (Sigma-Aldrich). Subsequently, we incubated sections overnight with the following primary antibodies: anti-OC antibody (rabbit polyclonal, Ab109112, 1:10,000; Abcam, Cambridge, UK) or anti-DSP antibody (rabbit polyclonal, sc-33586, 1:500; Santa Cruz Biotechnology, Santa Cruz, CA, USA). Subsequently, we applied EnVision + System-Horseradish peroxidase (HRP)-Labeled Polymer anti-rabbit (K4003, Dako) for 20 min. After developing color using the labeled streptavidin biotin kit (Dako) as per the manufacturer’s guidelines, we counterstained the sections with Gill’s hematoxylin (Sigma-Aldrich).
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4

Renal Biopsy for Nephrotic Syndrome

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Renal biopsy was performed to investigate the cause of the nephrotic syndrome. Tissues for light microscopy and immunofluorescence were routinely fixed in formalin and embedded in paraffin. The formalin-fixed paraffin-embedded sections were cut at 2 μm and stained with hematoxylin and eosin, periodic acid-Schiff, periodic acid methenamine silver, Masson's trichrome, and Congo red. Immunofluorescence staining was performed using formalin-fixed paraffin-embedded sections that were prepared by protease K (Dako, Copenhagen, Denmark) for 60 min. Fluorescein isothiocyanate-labeled rabbit anti-human IgG, IgA, IgM, C1q, C3, fibrinogen, kappa- and lambda-light chains (Dako) were used. Additionally, mouse monoclonal anti-human IgG1, IgG2, IgG4 (Chemicon, Temecula, CA, USA), and IgG3 (Thermo Fisher Scientific) antibodies, and rabbit polyclonal anti-PLA2R antibodies (Abcam) were used followed by Alexa 546 goat anti-mouse IgG (H+L) and Alexa 488 goat anti-rabbit IgG (H+L) (Thermo Fisher Scientific).
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5

Immunohistochemical Analysis of EGFR Expression

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EGFR was assessed by immunohistochemistry, IHC, using a streptavidin-biotin complex technique as previously described.23 (link),24 (link) Endogenous peroxidase was blocked in 0.3% H2O2 in PBS for 20 min. Then, antigen retrieval was done in 0.05% protease K (Code no. S3020, Dako, Glostrup, Denmark) in PBS for 10 min at room temperature. The tissue sections were preincubated in PBS for 10 min and then the primary mouse monoclonal antibody (clone 31G7, Zymed labs, South San Francisco, CA, USA) directed against the EGF receptor, diluted 1:100, was added and the sections incubated overnight at 4°C. The secondary biotinylated antibody (goat anti-mouse, Dako, Glostrup, Denmark) and the peroxidase-labeled streptavidin-biotin complex (Dako, Glostrup, Denmark), diluted 1:200, were then added and the samples incubated for 30 min at room temperature. All sections were developed in 0.05% diamino benzidine (Sigma, St Louis, MO, USA) for 5 min and counterstained in Harris haematoxylin (Sigma, St Louis, MO, USA). Finally, the sections were dehydrated through graded alcohol to xylene and mounted in organic mounting medium (Pertex®, Histolab, Gothenburg, Sweden).
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6

In Situ Apoptosis Detection in Kidney

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Apoptotic cells were detected using an ApopTag Fluorescein In Situ Apoptosis Detection kit (Roche, Mannheim, Germany). Paraffin-embedded kidney slides were deparaffinized, hydrated, and sequentially incubated with protease K (Dako, Santa Clara, CA, USA), terminal deoxynucleotidyl transferase enzyme, and anti-digoxigenin-fluorescein (Roche). The slides were mounted with Gold antifade reagent containing 4',6-diamidino-2-phenylindole (Invitrogen, Carlsbad, Calif, USA) and examined under a fluorescence microscope. For each sample, five fields (400×) were randomly selected, and the staining was quantified using computer-based morphometric analysis (Qwin 3, Leica, Mannheim, Germany). Scoring was performed in a blinded manner using the mean values of the positive areas (%).
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