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15 protocols using mouse anti caspase 3

1

Immunohistochemical Analysis of Apoptosis and Microglia

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To detect apoptosis and microglial activation, immunohistochemistry for caspase-3, GFAP, and CD11b was performed, according to the previously described method (Choi et al., 2013 (link); Kim et al., 2014b (link); Sung et al., 2012 (link)). The sections were drawn from each brain and incubated overnight with mouse anti-caspase-3, rabbit anti-GFAP, and mouse anti-CD11b antibody (1:500; Santa Cruz Biotechnology, Santa Cruz, CA, USA). The sections were then washed three times with PBS and incubated for 1 hr with biotinylated anti-mouse caspase, anti-rabbit GFAP and, anti-mouse CD11b secondary antibody (1:200; Vector Laboratories, Burlingame, CA, USA). Bound secondary antibody was then amplified with Vector Elite ABC kit (1:100; Vector Laboratories). The antibody-biotin-avidin-peroxidase complexes were visualized using 0.03% DAB and the sections were finally mounted onto gelatin-coated slides. The slides were air dried overnight at room temperature, and coverslips were mounted using Permount (Fisher Scientific).
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2

Immunolocalization of Caspase-3 in Tissues

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Immunolocalization technique for caspase-3 was performed on 3- to 4-μm thickness sections according to Pedrycz and Czerny [30 (link)]. For negative controls, the primary antibody was omitted. In brief, mouse anti-caspase-3 (diluted 1:250, Santa Cruz Biotechnology, USA), was incubated with sections for 60 minutes. Primary antibodies were diluted in Tris buffered saline (TBS)/1% bovine serum albumin (BSA). Then a biotinylated secondary antibody directed against mice immunoglobulin (Biotinylated Link Universal – DakoCytomation kit, supplied ready to use) was added and incubated for 15 minutes, followed by addition of horse radish peroxidase conjugated with streptavidin (DakoCytomation kit, supplied ready to use) also incubated for 15 minutes. At the sites of immunolocalization of the primary antibodies, a reddish to brown color appeared after adding 3-amino-9-ethylcarbasole (AEC) (DakoCytomationkit, supplied ready to use) for 15 minutes. Specimens were counterstained with hematoxylin for one minute and mounted using the Aquatex fluid (Merck KGaA, Germany).
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3

Immunohistochemical Analysis of Inflammatory Markers

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Mouse anti-pJNK, mouse anti-TNFα, mouse anti-COX2, mouse anti–caspase 3, an ABC Elite kit, and 3,3′-diaminobenzidine peroxidase were purchased from Santa Cruz Biotechnology. The secondary antibody goat antimouse was obtained from Abcam. PBS tablets, formaldehyde, proteinase K, H2O2, and mounting media were obtained from BDH (Germany). Melatonin was purchased from Alfa Asar. Glutathione (GSH), trichloroacetic acid, 1-chloro-2,4-dinitrobenzene, N-(1-naphthyl)ethylenediamine dihydrochloride and 5,5ʹ-dithiobis(2-nitrobenzoic acid) were purchased from Sigma-Aldrich. All other chemicals, including celecoxib, were obtained from local sources after ensuring high analytical grade.
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4

Immunohistochemical Analysis of Liver Tissue

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The liver tissue slices were incubated in proteinase K (20 μg/ml) for 5 min for proteolysis and were blocked with 10% normal goat serum for 4 h at room temperature. Then, the samples were incubated for 72 h in a 4℃ humidified chamber with the following primary antibodies: mouse anti-PPARγ (1:50, Santa Cruz, CA), mouse anti-p-mTOR (1:50, Santa Cruz, CA), mouse anti-glutathione peroxidase 4 (GPx4) (1:100, Santa Cruz, CA), mouse anti-8-OHdG (1:100, Santa Cruz, CA), mouse anti-caspase 3 (1:100, Santa Cruz, CA), mouse anti-p-IkB (1:250, Santa Cruz, CA), mouse anti-ERK (1:100, Santa Cruz, CA), and mouse anti-p-JNK0 (1:100, Santa Cruz, CA). Biotinylated goat anti-mouse IgG (1:100, Abcam, Cambridge, UK) secondary antibodies were incubated for 48 h in a 4℃ humidified chamber. Finally, the samples were incubated with the avidin biotin complex solution (ABC kit, Vector Laboratories Inc., Burlingame, CA) for 1 h at room temperature. The immune-reactivity was visualized in a 50-mM Tris−HCl solution (pH 7.4) containing 0.05% 3,3´-diaminobenzidine and 0.01% H2O2, followed by counterstaining with hematoxylin.
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5

Influence of AFP on Apoptosis and Metastasis

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To estimate the influence of AFP on the expression of apoptosis-related proteins and metastasis-related proteins, Bel 7402 cells and HLE cells were transfected with the AFP-siRNA vectors or AFP expression vectors, respectively, for 24 h, followed by BITC treatment (20 μmol/L or 40 μmol/L, respectively) for 48 h. The expression of apoptosis-related proteins, such as activeted-caspase-3, PARP-1 and survivin, and metastasis-related proteins, such as MMP2, MMP9 and CXCR4, in the Bel 7402 cells and HLE cells was analyzed by Western blotting. Briefly, these protein were probed for the following primary antibodies: mouse anti-caspase-3(1:500), PARP1(1:500), survivin(1:500) or β-actin (1:1000); rabbit ant-MMP2(1:400), MMP9 (1:400) or -CXCR4(1:400) antibody (all from Santa Cruz Biotechnology Inc.). The detailed procedure was described in a previous study [19 (link)].
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6

Western Blot Analysis of Protein Extracts

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Western blot analyses on 10–50 μg protein extracts from the cells were performed as described earlier. The cells were lysed using a protein lysis buffer (20 mM Tris-HCl pH 7.5, 150 mM NaCl, 1 mM EDTA, 1 mM EGTA, 1% Triton X-100, 2.5 mM Na4P2O7, 50 mM NaF, 5 mM β-glycerophosphate, 1 mM Na3VO4) containing protease inhibitor (Roche, Basel, Switzerland). The lysates were quantified by a Micro BCATM Protein Assay kit (Thermo Fisher Scientific, Waltham, MA, USA) based on the standard curve using BSA. The following antibodies were used for immunoblot analysis: rabbit anti-USP47 (A301-048A, Bethyl Laboratories, Montgomery, TX, USA), rabbit anti-RPL11 (ab79352, Abcam), mouse anti-p53 (sc-126, Santa Cruz, Dallas, TX, USA), mouse anti-MDM2 (PA5-11353, Invitrogen), anti-p21 (2947S, Cell signaling Technology, Danvers, MA, USA), mouse anti-XIAP (sc-55551, Santa Cruz), mouse anti-caspase 3 (sc-271028, Santa Cruz), mouse anti-HSP90α/β (sc-13119, Santa Cruz), rabbit anti-β-actin (LF-PA0207, Ab frontier, Seoul, Korea), mouse anti-HA (sc-7392, Santa Cruz), and mouse anti-Flag (F1804, Sigma-Aldrich). The band intensity was quantified using image J and normalized by an indicated loading control protein. Original images of the western blot can be found in Supplementary File S1.
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7

Immunohistochemical Staining Protocol

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Immunohistochemical staining was performed as described previously, with few modifications.25 (link) After deparaffinization, slides were processed for the antigen-retrieval step (enzymatic method), then washed with PBS. The endogenous peroxidase was quenched by applying 3% H2O2 in methanol for 10 minutes. Slides were incubated with 5% normal goat serum containing 0.1% Triton X-100. After blocking, slides were incubated overnight with mouse anti-JNK (pJNK), mouse anti–caspase 3, mouse anti-TNFα, and mouse anti-COX2 antibodies (dilution 1:100, Santa Cruz Biotechnology). The following morning, after being washed with 0.1 M PBS, slides were incubated in biotinylated secondary antibody (dilution 1:50) according to the origin of the primary antibody and serum used. Following secondary antibody treatment, slides were incubated with the ABC Elite kit for 1 hour in a humidified chamber, then washed with 0.1 M PBS, stained in 3,3′-diaminobenzidine peroxidase solution, washed with distilled water, dehydrated in a graded ethanol series, fixed in xylene, and coverslipped in mounting medium. Immunohistochemical TIF images were captured with light microscopy.
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8

Schisandrin B Regulates Apoptosis Pathways in Rat Spinal Cord

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Following schisandrin B treatment for 5 days, rats (n=6) were sacrificed and spinal cord samples were collected. The spinal cord was homogenized with liquid nitrogen and radioimmunoprecipitation lysis buffer (Beyotime Institute of Biotechnology, Haimen, China). The homogenate was centrifuged at 12,000 × g for 10 min at 4°C and analyzed using a bicinchoninic acid assay kit (Beyotime Institute of Biotechnology). An equal quantity (50 µg) of protein was separated by 8–10% SDS-PAGE, then transferred onto nitrocellulose filter membranes. Membranes were blocked with 5% skim milk powder in TBST for 1 h at 37°C and detected using the following primary antibodies: Mouse anti-caspase-3 (catalog no. sc-22139; dilution, 1:300; Santa Cruz Biotechnology, Inc., Dallas, TX, USA); p-p53 expression (catalog no. sc-12904-R; dilution, 1:1,000; Santa Cruz Biotechnology, Inc.); or mouse anti-β-actin (catalog no. BB-2116-1;dilution, 1:5,000; BestBio Inc., Shanghai, China) at 4°C overnight. Proteins of interest were detected with horseradish peroxidase-conjugated goat anti-mouse secondary antibody (catalog no. sc-2005; dilution, 1:5,000; Santa Cruz Biotechnology, Inc.) Proteins were observed using an enhanced chemiluminescence detection ECL kit (BestBio Inc.) and quantified using imaging software (BioSens Digital Imaging 5; Shanghai Bio-Tech Inc., Shanghai, China).
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9

Western Blot Analysis of Cell Signaling

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Firstly, the cells were washed twice with PBS prior to sample preparation. RIPA lysis solution (P0013C, Beyotime, Shanghai, China) was used to lyse the cells at 4 °C for 30 min. A BCA kit (P0010S, Beyotime, Shanghai, China) was used to detect the total protein concentration. Then, SDS–PAGE loading buffer (P0015F, Beyotime, Shanghai, China) was added to the lysate, and the mixture was boiled at 100 °C for 5 min. Then, 10–20 µg of protein per sample was separated with SDS-PAGE gels. Next, the proteins were transferred onto polyvinylidene fluoride (PVDF) membranes (Millipore, Billerica, MA, USA, ISEQ00010). The blots were incubated overnight at 4 °C with the corresponding primary antibodies and incubated with secondary antibodies at room temperature for 1 h, and developed with ECL substrate solutions A and B (Pierce™, Thermo Fischer). The primary antibodies used were: mouse anti-CDK4(sc-23896, Santa Cruz), mouse anti-Cyclin D1(sc-8396, Santa Cruz), mouse anti-p53(sc-126, Santa Cruz), mouse anti-BCL-2(sc-7382, Santa Cruz), mouse anti-BAX (sc-7480, Santa Cruz), mouse anti-NF-kB (sc-8008, Santa Cruz), mouse anti-Caspase3(sc-7272, Santa Cruz), and mouse anti-β-actin (sc-47778, Santa Cruz).
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10

Western Blotting of Apoptosis Regulators

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Probes were subjected to standard SDS gel electrophoresis and Western blotting. SDS gel electrophoresis was performed in 10% or 12% acrylamide gels as previously described using Peqlab running chambers and semi-dry transfer system. Proteins were detected applying goat anti-KPNA2 (Santa-Cruz; 1:75), mouse anti-beta actin (Cell Signaling Technology; 1:500), mouse anti-Caspase 3 (Santa Cruz; 1:500), mouse anti-Caspase 8 (Santa Cruz; 1:500), mouse anti-Bcl2 (Santa Cruz; 1:500), mouse anti-c-MYC (Santa Cruz; 1:500) antibodies. Visualization was achieved via chemilumineszenz using the clarity ECL solution (BioRad) and an PeqLab Fusion imaging system (both LI-COR Biosciences, Lincoln, NE) scanner. Protein quantifications were performed using
The Odyssey software. The intensity for each band was determined and normalized to the intensity of the actin band of the corresponding probe.
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