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5 protocols using ki 67

1

Immunohistochemical Analysis of Kidney Sections

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Deparaffinized kidney sections (5 μm thick) were immunostained with antibodies against desmin (ab8470; Abcam, Cambridge, UK), Ki-67 (no. 418071; Nichirei Biosciences, Tokyo, Japan), p-mTOR (no. 293133; Santa Cruz Biotechnology, Santa Cruz, CA), and p-ERK (no. 4376; Cell Signaling Technology, Danvers, MA) according to the instructions for analyzing under a light microscope (Eclipse 80i microscope; Nikon, Tokyo, Japan). For each section, 30 randomly chosen fields were photographed using a digital color camera (DS-Fi2-U3 color camera, Nikon). Using ImageJ, the stained percentage of the target area was then estimated after selecting a glomerular area with desmin staining (14 (link)). The percentage of cells positive for Ki-67 was calculated from the total number of cells containing epithelial cysts and noncystic tubules from each kidney section using ImageJ, as described previously (28 (link)).
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2

Immunofluorescent Staining Protocol for Protein Analysis

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Luciferase assay was performed as described previously11 (link),16 (link). Dewaxed paraffin sections were used for immunofluorescent staining. The sections were incubated with rabbit polyclonal antibody raised against PITX1 (ab70273, 1:2000; Abcam), SOX9 (ab185966, 1:500; Abcam), SOX10 (ab155279, 1:10,000; Abcam), Ki-67 (pre-diluted, Nichirei, Tokyo, Japan) or cleaved Caspase3 (#9664, 1:400; Cell Signaling Technology) at 4 °C overnight. After being washed in T-TBS, the sections were incubated with secondary Alexa488-conjugated anti-rabbit IgG antibody (#8890, 1:500, Cell Signaling Technology) for 1 h at room temperature. After further washing, coverslips were placed on the glass slides using a water-soluble mounting medium. The slides were observed using fluorescence microscopy. Images were captured using an AxioImagerZ2 fluorescence microscope (Carl Zeiss GmbH, Jena, Germany) with a 40 × objective.
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Immunohistochemical Staining of Mouse Tissue

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Subcutaneous nodules on mouse backs were fixed in 20% formalin and embedded in paraffin. Cut paraffin sections were deparaffinized, dehydrated, and treated with 2% proteinase K (Dako) in Tris–HCl buffer solution (pH 7.5) for 5 min at room temperature, or heated in ChemMate Target Retried Solution (Dako) for 5–20 min in a high-pressure steam sterilizer for epitope unmasking. After washing with distilled water, samples were placed in 1% hydrogen peroxide/methanol for 15 min to block endogenous peroxidase. The sections were then incubated at room temperature for 60 min in primary antibodies diluted with antibody diluent (Dako). The following primary antibodies against various human differentiation antigens were used: vimentin (V9, M0725, Dako, Glostrup, Denmark), albumin (Dako), AE1/AE3 (712811, NICHIREI), and Ki67 (ABCAM, ab15580). Then, they were washed three times with 0.01 M Tris buffered saline (TBS) solution (pH 7.4) and incubated with goat anti-mouse or anti-rabbit immunoglobulin labeled with dextran molecules and horseradish peroxidase (EnVision, Dako) at room temperature for 30 min. After three times washes with TBS, they were incubated in 3,3′-diaminobenzidine in substrate-chromogen solution (Dako) for 5–10 min. Negative controls were performed by omitting the primary antibody. The sections were counterstained with hematoxylin.
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4

Immunohistochemical Analysis of Cholangiocyte Proliferation

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Immunohistochemistry was conducted, and the labeling index of Ki-67, phosphorylated (p-) extracellular signalregulated kinase (ERK) and mTOR, which indicates cell proliferation of cholangiocytes, was evaluated as previously described ( 17,18 ). The liver tissues were fixed with 10% paraformaldehyde and embedded in paraffin. Tissue sections were deparaffinized in xylene, rehydrated in graded ethanol, and then rinsed in phosphatebuffered saline. To block endogenous peroxidase activity, rehydrated sections were treated with 0.3% H 2 O 2 in absolute ethanol for 5 min then processed for immunostaining with antibodies against Ki-67 (diluted 1:300; Nichirei Biosciences, Tokyo, Japan), p-ERK (diluted 1:100; Cell Signaling Technology, Danvers, MA), p-mTOR (diluted 1:100; Santa Cruz Biotechnology, Dallas, TX), and Histofine Simple Stain Max PO kits (Nichirei Biosciences) according to the manufacturer's instructions. After washing with phosphate-buffered saline, a chromogen solution (diaminobenzidine and H 2 O 2 ) was applied to the sections. The slides were counterstained with hematoxylin for 30 s. At least 500 randomly chosen cholangiocytes were surveyed for each specimen, and the percentage of positive cells were expressed as the Ki-67 labeling index.
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5

Immunohistochemical Analysis of Kidney Sections

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Deparaffinized kidney sections (5 μm thick) were immunostained with antibodies against desmin (ab8470, Abcam, Cambridge, UK), Ki-67 (#418071, Nichirei Biosciences, Tokyo, Japan), p-mTOR (#293133, Santa Cruz Biotechnology, Santa Cruz, CA, USA), and p-ERK (#4376, Cell Signaling Technology, Danvers, MA, USA) according to the instructions for analyzing under a light microscope (Eclipse 80i microscope, Nikon, Tokyo, Japan). For each section, 30 randomly chosen fields were photographed using a digital color camera (DS-Fi2-U3 color camera, Nikon). Using ImageJ, the stained percentage of the target area was then estimated after selecting a glomerular area with desmin staining(13). The percentage of cells positive for Ki-67, was calculated from the total number of cells containing epithelial cysts and non-cystic tubules from each kidney section using ImageJ, as described previously (27) .
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