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7 protocols using caspase 3

1

Oxidative Stress Assessment Protocols

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2′,7′-Dichlorofluorescein diacetate (DCF-DA) and dimethyl sulfoxide (DMSO) were purchased from Sigma-Aldrich, the antibody raised against HO-1 (1 : 500), BLVRB (1 : 500), and Gclm (1 : 1000) from Proteintech Group, Inc. (Chicago, IL, USA); Nrf2 (WB, 1 : 1000, IF, 1 : 200) and Gsta3 (1 : 500) from Abcam (Cambridge, MA, USA); SRXN1 (1 : 500) from Bioss (Beijing, China); Caspase 3 (WB, 1 : 1000) from Abmart (Shanghai, China); and β-actin (WB, 1 : 2000) from OriGene Technologies, Inc. (Rockville, MD, USA). Alexa Fluor 546 anti-mouse secondary Ab (IF:1 : 2000, A-11030), goat anti-mouse IgG (H + L) peroxidase conjugated (WB: 1 : 20000, 31430), and goat anti-rabbit IgG (H + L) peroxidase conjugated (WB: 1 : 20000, 31460) were purchased from Thermo Fisher Scientific (Waltham, MA, USA).
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2

Western Blot Analysis of Protein Expression

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Total protein was extracted from cell lines using lysis buffer (Thermo Fisher Scientific), containing a protease and phosphatase inhibitor cocktail (Beyotime, Shanghai, China), and quantified using the Bradford method. Next, 40 µg of protein was subjected to sodium dodecyl sulfate polyacrylamide gel electrophoresis (8%), and the separated proteins were transferred to polyvinylidene fluoride membranes (EMD Millipore, Billerica, MA, USA). After blocking with 5% non-fat milk in PBS, the membranes were incubated overnight at 4°C with primary antibodies against: TRAF4 (H2818, 1:100, Santa Cruz Biotechnology), Eg5 (1:1000), Smurf2 (F0641, 1:100, Santa Cruz Biotechnology), HA (TA180128S, 1:1000, Origene), α-tubulin (ab52866, 1:1000, Abcam), Caspase-3 (M005851F, 1:1000, Abmart), Bcl-2 (T40056F, 1:1000, Abmart), Bax (T40051F, 1:1000, Abmart), Ki67 (550609, 1:1000, BD Pharmingen), GAPDH (AF0006, 1:2000, Beyotime) and β-actin (1:2000, Beyotime). Next, the membranes were incubated with secondary HRP-conjugated antibody, anti-mouse immunoglobulin G (IgG), or anti-rabbit immunoglobulin (1:2000, Santa Cruz Biotechnology) at 37°C for 2h. Finally, antibody binding wasvisualizedusing electro-chemiluminescence (Thermo Fisher Scientific), and quantified using ImageJ (National Institute of Health, Bethesda, MD, USA).
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3

Protein Extraction and Western Blot Analysis

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We used Ishikawa and SNGM cells during the logarithmic growth period to extract total proteins, and protein content determined by BCA Protein Quantification Kit. Take a protein sample and heat it at 100 °C for 3 min to make the protein fully denatured. After separating the mixed protein sample by using polypropylene gel (10% separation gel, 5% concentrated gel), it was placed onto a polyvinylidene difluoride (PVDF) membrane and sealed with 5% skim milk powder (2.5 g non-fat powdered milk + 50 ml Tris-buffered saline with Tween 20). Incubate these membranes with antibodies at 4 °C for 12–16 h: KIF23 (1:2000; Affinity), p-ERK (1:1000; Beyotime), ERK (1:1000; Beyotime), p-AKT (1:1000; ABclonal), AKT (1:5000; ABclonal), p-PI3K (1:1000; ABclonal), PI3K (1:2000; Bioworld), BCL-2 (1:1000; Beyotime), BAX (1:1000; Beyotime), Caspase-3 (1:1000; Abmart), and GAPDH (1:1000; Beyotime). Subsequently, the sample was coupled with peroxidase-coupled anti-rabbit IgG antibody (1:5000; Beyotime, China) for 2 h under room temperature. ECL enhanced chemiluminescence kit (BOSTER, USA) Using a supersensitive ECL chemiluminescence ready-to-use substrate (BOSTER, USA) to visualize the strip on the Bio-RAD machine.
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4

Evaluation of Antioxidant Pathways

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Dulbecco’s modified eagle medium-F12 (DMEM/F12) and fetal bovine serum (FBS) were purchased from KeyGEN BioTECH (Jiangsu, China) and Cyagen Biosciences, Inc. (Guangzhou, China). Solarbio (Beijing, China) provided cell counting kit-8 (CCK-8), a superoxide dismutase (SOD) kit, malondialdehyde (MDA), and total protein contents (BCA) kits. ROS kit and a MMP assay kit were obtained from Beyotime (Beyotime, China). Rabbit monoclonal antibodies against PI3K, Akt, mTOR, JNK, P38, and ERK, as well as their corresponding phosphorylation antibodies, were purchased from Cell Signaling Technology (MA, US), and apoptosis primary antibodies, including Bax, Bcl-2, Caspase-3, Cleaved Caspase-3, heme oxygenase 1 (HO-1) and quinone oxidoreductase 1 (NQO-1), nuclear factor erythroid 2-related factor 2 (Nrf2), and Keap1 were prepared by Abmart (Shanghai, China).
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5

Protein Expression Analysis by Western Blot

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The transfected cells were lysed with RIPA lysate for 30 min to extract the total protein. Then total protein was divided by electrophoresis in SDS-PAGE system for 120 V, 2 h. Polyvinylidene fluoride (PVDF) membrane as the carrier and protein transferred for 400 mA, 1 h. The following antibodies were used: LC3B (Proteintech: 14,600–1-AP, 1:1000), p62 (Abmart: T59081, 1:1000), tubulin (Abmart: M20005, 1:1000), Caspase 3 (Abmart: T40044, 1:1000), bcl-2 (Abmart: T40056, 1:1000), CDK1 (Abways: CY5176, 1:1000), cyclin B1 (Abways: CY5378, 1:1000), cyclin D1 (Abways: CY5404, 1:1000), RAB11A (Abways: CY5301, 1:1000).
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6

Western Blotting Analysis of Apoptosis Mediators

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In this study, the following antibodies were employed: BCL-2 (T40056T40056; Abmart, Shanghai, China), BAX (T40051; Abmart), Cytochrome C (T55734T55734; Abmart), PARP (T40050; Abmart), Caspase 3 (T40044; Abmart), Caspase 9 (T40046; Abmart), RIG-I (#20566-1-AP; Proteintech, Wuhan, China), mitochondrial antiviral signaling protein (MAVS, #66911-1-Ig; Proteintech), IRF3 (#11312-1-AP; Proteintech), P-IRF3 (#29528-1-AP; Proteintech), and GAPDH (#60004-1-Ig; Proteintech). Cells were harvested and lysed in radio-immunoprecipitation assay buffer (BL504A; Biosharp, Tallinn, Estonia) supplemented with Halt protease (BS-00-0903; Biosharp) and phosphatase inhibitor cocktail (BL615A; Biosharp) on ice. Subsequently, the cell lysates underwent Western blotting analysis, with GAPDH serving as a loading control.
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7

Western Blot Analysis of Autophagy and Apoptosis Markers

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Cells and tissues were lysed in RIPA buffer supplemented with 1% PMSF (Solarbio, Beijing, China). Protein concentrations were quantified with a BCA Protein Assay Kit (Beyotime, Shanghai, China). The proteins were separated by SDS-polyacrylamide gel electrophoresis, and the separated proteins were then transferred to a polyvinylidene difluoride (PVDF) membrane (Millipore, Boston, MA, USA). Then, the membranes were incubated with the following primary antibodies overnight at 4 °C: ATP6V1B1 (1:1000, Proteintech, Wuhan, China), β-actin (1:1000, Proteintech, Wuhan, China), GAPDH (1:10,000, Proteintech, Wuhan, China), mTOR/p-mTOR (1:1000, Abmart, Shanghai, China), P62 (1:2000, Abmart, Shanghai, China), LC3B (1:2000, Abcam, Shanghai, China), Bax (1:1000, Abmart, Shanghai, China), Bcl2 (1:1000, Abmart, Shanghai, China), Caspase-3 (1:1000, Abmart, Shanghai, China), and Cleaved Caspase-3 (1:1000, Abmart, Shanghai, China). The following day, the membranes were incubated with an IgG secondary antibody (1:10,000, Invitrogen, USA) at room temperature. Signal visualization was achieved using an Odyssey CLx (LI-COR, USA).
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