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267 protocols using proliferating cell nuclear antigen (pcna)

1

Histological Analysis of Urethral Regeneration

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The urethras were harvested after 4 weeks and 8 weeks postoperatively for histology analysis. Hematoxylin and eosin staining (H&E) and Masson's trichrome staining tests were conducted to identify the epithelial layer and collagen distribution of urethra. The specimens were fixed in 4% paraformaldehyde for 30 min at room temperature. Then, they were dehydrated with different grades of alcohol and embedded in the paraffin blocks. Histological sections were prepared and observed using an optical microscope. To further demonstrate the repair of urethral function, the samples were stained for immunofluorescence for epithelial cytokeratin AE1/AE3 (Santa Cruz Biotechnology, Inc.), CD31 (blood vessels, 1:100, Proteintech Group, Inc), CD206 (1:500, Proteintech Group, Inc), and PCNA (Proliferating Cell Nuclear Antigen 1:500, Abcam plc). Nuclei were stained with DAPI (1:500, Life Technologies). Afterward, the specimens were imaged and observed by an optical microscope.
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2

Visualizing brain angiogenesis in GBM

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Human GBM and normal brain tissue samples were snap frozen. Intracranial xenografts were fixed in 4% paraformaldehyde, incubated overnight in 30% sucrose and embedded in OCT. Samples were sectioned at a thickness of 10µm. Blood vessels were visualized by Von Willebrand Factor (Abcam) staining. Sections were additionally stained for CD36 (Novus), integrin α6 (Millipore), CD133 (Miltenyi), and/or Iba1 (Wako). Age-matched wild-type and CD36 knockout mouse brains were prepared in a similar manner as described above and stained with antibodies against proliferating cell nuclear antigen (Abcam) and phospho histone H3 (Millipore). Analysis between wild-type and CD36 knockout mice was done based on 3 different anatomical regions from 3 separate mice. For all immunofluorescence analysis, nuclei were counterstained using 4',6-diamidino-2-phenylindole (Dapi) and images were taken using a Leica SP-5 confocal microscope as previously described [27 (link)].
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3

Western Blot Analysis of Apoptosis

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Total protein was extracted and protein concentration was then measured by the DC protein-assay method of Bradford (Bio-Rad, Hercules, CA). A total of 20 mg protein from each sample was used for western blotting. The primary antibodies for caspase 3, caspase 7, caspase 8, PARP, p27 Kip1 and NOTCH1 were purchased from Cell Signaling Technology (Danvers, MA, USA). Antibodies for p53, p21Cip1/Waf1, MMP7, MMP9 and GAPDH from Santa Cruz Biotechnology (Santa Cruz, CA, USA). Proliferating cell nuclear antigen was purchased from Abcam. Bands were quantified by scanning densitometry. All of the western blot data have been repeated three times independently and only representative images were showed in the Figures.
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4

Quantifying Angiogenic Effect of M2 Exosomes on SCI

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To assess the angiogenic effect of the M2 macrophage exosomes on the SC of the rats post-SCI, the proportion of proliferating blood vessels was detected by immunofluorescence staining. After SCI for 3 days, the SC tissues were collected and fixed with paraformaldehyde (4%) for 3 h. After incubation with 6% sucrose in PBS overnight, an optimal cutting temperature compound (Sakura Finetek, Torrance, CA, USA) was used to embed the tissues and then sectioned at 5 μm thickness (n = 5/group). After air-drying for 15 min, 10% normal goat serum/PBS was added to the sections for 1 h, and then, they were exposed to proliferating cell nuclear antigen (PCNA, Shanghai, China) rabbit monoclonal antibody (1:200; Abcam, Cambridge, UK) or CD31 mouse monoclonal antibody (1:100; Abcam, Cambridge, UK), Nestin (1:200, Abcam, Cambridge, UK), NeuN (1:200, Abcam, Cambridge, UK), and Sox2 (1:200, Sangon Biotech, Shanghai, China) overnight at 4 °C. After washing with PBS, the sections were exposed to the secondary antibody Cy3 goat anti-mouse IgG (H + L) (1:1000, Jackson, Bar Harbor, ME, USA) or Alexa Fluor 488 goat anti-rabbit IgG (H + L) (1:1000, Jackson, Bar Harbor, ME, USA) for 30 min. The sections were rinsed thrice with PBS and exposed to DAPI solution (CST, Boston, MA, USA) for 15 min. The number of positive cells in the SC was counted.
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5

Liver Tissue Analysis for Hepatocyte Proliferation

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After euthanasia and harvesting, the weight of the whole liver and each lobe was measured using a laboratory microscale (Sartorius AG, Gottingen, Germany). The liver tissues were fixed in 10% buffered formalin, embedded, sectioned, and stained with hematoxylineeosin. Hepatocyte proliferation was measured by immunohistochemistry for proliferating cell nuclear antigen (Abcam, MA) and Ki-67 antibody (Dako Cytomation, Carpentaria, CA). The Ki-67epositive hepatocyte rate was the proportion of Ki-67epositive hepatocytes as a percentage of total hepatocytes, over five medium-power fields (200Â magnification) of each slide, as assessed using Image J software (National Institutes of Health, Bethesda, MD). All slides were evaluated by an experienced pathologist.
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Western Blot Analysis of Protein Expression

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A375 and A875 cells were harvested with RIPA buffer (Thermo Fisher Scientific) in compliance with the manufacturer’s instructions. Then, the protein concentration was examined using BCA Protein Assay Kit (Thermo Fisher Scientific). Equal amount protein samples were loaded on sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) and transferred onto polyvinylidene fluoride (PVDF) membranes. Subsequently, membranes were blocked with 1% bovine serum albumin for 1 h at room temperature and probed with primary antibodies at 4°C overnight, and GAPDH (1:2000 dilution; Abcam, Cambridge, MA, USA) was used for normalization. After extensive washing, the membranes were incubated with a goat anti-rabbit horseradish peroxidase-conjugated secondary antibody (1:2000 dilution; Abcam) for 1 h. Finally, protein bands were visualized and analyzed with enhanced chemiluminescent method and Image J software (National Institutes of Health), respectively. The primary antibodies were listed as follow: hexokinase 2 (HK2; 1:1000 dilution; Abcam), E-cadherin (1:1000 dilution; Abcam), vimentin (1:1000 dilution; Abcam), N-cadherin (1:1000 dilution; Abcam), ITGA9 (1:1000 dilution; Abcam). ProliferatingCellNuclearAntigen (PCNA; 1:1000 dilution; Abcam), cyclin D1 (1:1000 dilution; Abcam), B-cell lymphoma-2 (Bcl-2; 1:1000 dilution; Abcam).
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7

Immunoblot Analysis of Cellular Proteins

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Lung and cell culture protein lysates (30 μg/lane) were separated by 10–12% sodium dodecyl sulfate-polyacrylamide gel electrophoresis and immunoblots were developed as previously described [14 (link), 15 (link)]. The blots were probed with primary antibodies against NAMPT (1:2000, Thermo Fisher Scientific, Rockford, IL, USA), B-cell lymphoma (Bcl)-2 (1:200, Santa Cruz Biotechnology, Dallas, Texas, USA), NF-κB p65, phospho-NF-κB p65, inhibitor of NF-κB (IκB)-α, extracellular signal-related protein kinase 1/2 (ERK1/2), phosho-ERK1/2, c-Jun N-terminal kinase (JNK), phospho-JNK, p38 protein kinase (p38), phospho-p38, and mitogen-activated protein kinase phosphatase-1 (MKP-1) (1:1000, Cell Signaling Technology, Danvers, MA, USA), proliferating cell nuclear antigen (PCNA) (1:1000, Abcam, Cambridge, MA, USA), and β-actin (1:10000, Sigma Chemical Company, St. Louis, MO, USA). The data are presented as the relative ratio of the target protein to the reference protein.
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8

Immunofluorescence Staining of Intestinal Tissue

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Sections of small intestinal and colonic tissue from all rats sacrificed for immunofluorescence staining were frozen in tissue freezing medium prior to cryo-embedding and sectioning. For immunostaining, 6 µm frozen sections were fixed in cold acetone for 15 min. Thereafter, tissues were permeabilized with 0.2% Triton X-100 in PBS for 20 min, and blocking was achieved by incubation with 5% goat serum. Incubation with primary antibodies ZO-1 (1:100; Zymed Laboratories Inc., San Francisco, CA, USA), occludin (1:200; Zymed Laboratories Inc.), heme oxygenase-1 (HO-1) (1:500; Abcam Inc., Cambridge, MA, USA) and proliferating cell nuclear antigen (PCNA) (1:500; Abcam Inc.) was performed overnight at 4°C. After three washes with PBS, the sections were incubated with Alexa 594-conjugated secondary antibodies (1:500; Molecular Probes) at room temperature for 2 h in the dark. Sections were then washed and mounted under coverslips using ProLong Gold antifade reagent with DAPI (Invitrogen, Carlsbad, CA, USA). The stained sections were visualized and photographed using a Nikon fluorescence microscope (NIS-Elements systems; Nikon Instruments Inc., Melville, NY, USA).
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9

Protein Extraction and Western Blot Analysis

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Total proteins were extracted using RIPA buffer (Beyotime) and quantified using BCA Kit (Beyotime). The equivalent amount of protein was isolated by sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) gel and transferred onto polyvinylidene fluoride (PVDF) membranes (Millipore, Billerica, MA, USA). Then, the membranes were closed with 5% non-fat milk and incubated with the primary antibodies against caspase 3 (1:1000, Beyotime), B-cell lymphoma-2 (Bcl-2; 1:2000, Abcam, Cambridge, MA, USA), Bcl-2-associated x protein (Bax; 1:5000, Abcam), E-cadherin (1:1000, Abcam), Vimentin (1:2000, Abcam), FOXP2 (1:1000, Abcam), proliferating cell nuclear antigen (PCNA; 1:5000, Abcam) or GAPDH (1:5000, Abcam) at 4°C overnight. After incubated with the secondary antibody (1:2000, Abcam) for 1 h, the membranes were treated with enhanced chemiluminescence reagent (Beyotime) to visualize the protein signals.
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10

Immunofluorescence Analysis of Cell Markers

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The sections were processed for immunofluorescence for CD31 (1:100, Proteintech Group, Inc), CD206 Monoclonal Antibody (1500, Proteintech Group, Inc), AE1/AE3 (Santa Cruz Biotechnology, Inc.), Proliferating Cell Nuclear Antigen (PCNA, 1:500, Abcam plc) antibody. Briefly, the sections were incubated with primary antibodies at 4 °C overnight. After washing with phosphate-buffered saline (PBS), a secondary antibody (FITC) was used at 37 °C for 45 min in the dark. The sections were counterstained with DAPI at room temperature for 10 min in the dark. The sections were observed and collected under an inverted fluorescence microscope imaging system.
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