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20 protocols using ripa lysis buffer

1

Protein Expression Analysis in Cell Lysates

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The cells were lysed in RIPA Lysis Buffer (BB-3209, Best Bio biotechnology Company, Shanghai, China) and the cell lysates were separated by Sodium Dodecyl Sulfate Polyacrylamide Gel Electrophoresis (SDS-PAGE) gel electrophoresis, which was then transferred onto the polyvinylidene fluoride (PVDF) membrane. The membrane was incubated at 4 °C overnight with primary polyclonal rabbit antibodies to ST6GALNAC1 (ab82821, 1:1000), Oct4 (ab18976, 1:1000), CXCL16 (ab101404, 1:2000), p-PI3K (ab182651, 1:2000), and CD44 (ab157107, 1:2000), and primary monoclonal antibodies to PI3K (ab151549, 1:1000), Akt (ab179463, 1:1000), p-Akt (ab192623, 1:1000), Nanog (ab109250, 1:1000), S6 (ab32529, 1:1000), p-S6 (ab109393; 1:1000), epidermal growth factor receptor (EGFR) (ab52894, 1:1000), β-catenin (ab32572, 1:5000), and GAPDH (ab181603, 1:5000), respectively. These antibodies were all from Abcam Inc., (Cambridge, MA, USA). The membrane was then incubated with horseradish peroxidase (HRP) goat anti-rabbit (A2012, ABBkine, California, USA) at 37 °C for 1 h. GAPDH was used as an internal control. Relative level of target protein was shown to be equal to the gray value of target protein band/gray value of GAPDH band from the same sample. Each experiment was repeated three times.
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2

Western Blot Analysis of Apoptosis Markers

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Total protein was extracted using RIPA lysis buffer containing protease inhibitor and phosphatase inhibitor (BestBio, Shanghai, China). Protein was loaded onto SDS-PAGE gels, separated through electrophoresis, and transferred to PVDF membranes (Merck KGaA, Darmstadt, Germany). The membranes were incubated with the target primary antibody (PARP, BAX, BCL-2, LC3, P62, PINK1, Parkin and GAPDH) at 4° C overnight and then with the secondary antibody (1:5000, Santa Cruz Biotechnology, TX, USA) at room temperature for 2 h. Immunoblots were visualized using enhanced chemiluminescence (Fdbio Science, Hangzhou, China) and a Tanon-S200 imaging system (Shanghai, China). Bands were quantified and normalized to the loading control.
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3

Western Blot Analysis of Protein Expression

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We extracted total protein from treated cells or tissues using RIPA lysis buffer (BestBio) containing protease inhibitor cocktail Set I (BestBio). We separated proteins in 10% precast SDS-PAGE gels and transferred them onto a nitrocellulose membrane. The membrane was further incubated with primary P-glycoprotein mAb (1:100 dilution; ab170904, Abcam), ZEB1 mAb (1:100 dilution; 21544–1-AP, ProteinTech) or β-actin mAb (1:1000 dilution; Santa Cruz, CA, USA). We visualized the blots using an odyssey detection system (LI-COR Biosciences, Lincoln, NE, USA) and quantified protein abundance by ImageJ software.
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4

Western Blot Analysis of AQP4 Expression

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Total protein was extracted using RIPA lysis buffer (Shanghai BestBio Biotechnology Co., Ltd.). Protein levels in tissue homogenates were quantified using a BCA Protein assay kit (Thermo Fisher Scientific, Inc.), and 10 µg protein (each sample) was separated by SDS-PAGE (10% gel). Proteins were then transferred onto 0.22-µm PVDF membranes and blocked with 5% fat-free milk at room temperature for 2 h. Membranes were subsequently incubated at 4°C overnight with primary antibodies against AQP4 (1:1,000; cat. no. ab46182; Abcam) and β-actin (1:1,000; cat. no. ab8227; Abcam). Membranes were then washed in Tris-buffered saline containing 0.05% Tween 20 (TBS-T) and incubated with horseradish peroxidase-conjugated anti-rabbit IgG antibodies (1:5,000; cat. no. 7076; CST Biological Reagents Co., Ltd.) for 1 h at room temperature. Membranes were then incubated with enhanced chemiluminescence reagent (ECL Western blotting kit; GE Healthcare Life Sciences). The positive bands were detected using a Bio-Rad Molecular Imager system (Bio-Rad Laboratories, Inc.). Densitometric analysis was performed using Quantity One 1-D software (version 4.6.9; Bio-Rad Laboratories, Inc.), and the target bands were normalized to β-actin.
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5

Quantification of CTLA-4 Expression in CIK Cells

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For protein analysis, total protein was extracted from 1×107 CIK cells using RIPA lysis buffer (BestBio, Shanghai, China) and then quantified using a BCA kit (Pierce; Thermo Fisher Scientific, Inc.). Equal amount of whole cell lysates (20 µg per lane) were separated using SDS-PAGE on a 10% gel and transferred to a polyvinylidene difluoride membrane (Bio-Rad Laboratories, Inc., Hercules, CA, USA). The membrane was blocked using 2.5% non-fat milk for 1 h at room temperature and then incubated with rabbit monoclonal antibody against human CTLA-4 (cat. no. SC-9094; 1:200; Santa Cruz Biotechnology, Inc., Dallas, TX, USA) or rabbit polyclonal antibody against human GAPDH (cat. no. SC-25778; 1:1,000; Santa Cruz Biotechnology, Inc.) for 2 h at 25°C followed by incubation with a horseradish peroxidase-conjugated goat anti-rabbit immunoglobulin G antibody (cat. no. SC-2004; 1:2,000; Santa Cruz Biotechnology, Inc.) for 1 h at 25°C prior to detection with chemiluminescence (FluorChem HD2 system; ProteinSimple; Bio-Techne, Minneapolis, MN, USA). The expression of CTLA-4 was normalized to that of GAPDH.
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6

Extracellular Vesicle Protein Analysis

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Total protein was extracted from cells, which were lysed by radioimmunoprecipitation assay (RIPA) Lysis Buffer (BB-3209, BestBio Co., Ltd., Shanghai, China), separated by sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS–PAGE) and transferred to a polyvinylidene fluoride (PVDF) blotting membrane. After being blocked with a blocking solution for 1 h, the membrane was incubated with primary rabbit monoclonal antibodies, including anti-CD9 (1:2000, ab92726), anti-CD63 (1:1000, ab213090), anti-CD81 (1:1000, ab109201) and anti-FAM13A (1:500, ab122440) antibodies, overnight at 4 °C. All of the above antibodies were purchased from Abcam (Cambridge, MA, USA). The next day, the membrane was incubated with a horseradish peroxidase-labeled goat anti-rabbit immunoglobulin G (IgG) secondary antibody (1:1000, Wuhan Boster Biological Technology Co., Ltd., Wuhan, Hubei, China) for 1 h at 37 °C with shaking. The internal reference was GAPDH, and each experiment was repeated 3 times.
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7

Western Blot Analysis of Kidney Proteins

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Kidney tissues and podocytes were lysed with cold RIPA lysis buffer (BestBio, Shanghai, China) on ice and then sonicated and centrifuged at 12,000 g for 10 min at 4 °C. Protein concentrations were determined with a BCA Protein Assay Kit. Protein samples were loaded and separated using SDS–PAGE and then electrophoretically transferred to polyvinylidene difluoride (PVDF) membranes (Millipore, Massachusetts, USA). After blocking with 5% nonfat milk, the PVDF membranes were incubated at 4 °C overnight with the following primary antibodies: rabbit anti-Nrf2 (1:1000, CST), rabbit anti–HO–1 (1:1000, Abcam), rabbit anti-NOX2 (1:200, Abcam), rabbit anti-NOX4 (1:200, Abcam), rabbit anti-Bax (1:1000, CST), rabbit anti-Bcl-2 (1:1000, CST), rabbit anti-Cleaved-caspase3 (1:1000, CST), rabbit anti-Lamin B (1:1000, Santa Cruz) and mouse anti-β-actin (1:5000, Sungene Biotech). After incubation with appropriate horseradish peroxidase-conjugated secondary antibodies (Solarbio, Beijing, China), the immunoreactive bands were visualized using an ECL detection kit (Pierce, Rockford, IL, USA).
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8

Evaluating PLK-1 Expression in Tumor Tissues

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Tumor tissues were removed 24 h after the last administration to analyze PLK-1 expression in vivo. Tumor fragments (100 mg) were processed for total mRNA or protein extraction followed by qRT–PCR and western blot assays, respectively. The extracted mRNA samples were standardized to the same absorbance value of 260 nm and the expression of the PLK-1 mRNA was detected using qRT–PCR as described above. The selected tumor tissues were homogenized in 1 mL of RIPA lysis buffer (20 mM Tris–HCl (pH 7.4), 150 mM NaCl, 1% Triton X-100, 10 mM KCl, 1.5 mM MgCl2, 1 mM DTT, 100 mM AEBSF, 100 μM aprotinin, 5 mM bestatin, 1.5 mM E64, 2 mM leupeptin, 1.5 mM pepstatin A, cyclosporin A, sodium fluoride, beta-glycerophosphoric acid disodium salt, sodium orthovanadate, disodium molybdate dihydrate, and sodium pyrophosphate) (BestBio, China) supplemented with PMSF (1 mM) to evaluate PLK-1 protein levels. The lysates were incubated on ice for a total of 30 min and vortexed every 5 min. After purification and quantification, the protein levels were determined using western blot analysis as described above.
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9

Western Blot Analysis of Myogenic and Autophagy Markers

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The cells were collected from the cultures, placed in the RIPA lysis buffer on ice (BestBio, Shanghai, China). The whole proteins were subjected to 10% sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS-PAGE) and then transferred to polyvinylidene fluoride membranes (PVDF; Millipore Corporation, Billerica, MA, USA). The PVDF membrane was incubated with 5% defatted milk powder at room temperature for 1 h, then incubation with the following specific primary antibodies at 4℃ overnight: anti-FHL2 (Abcam, Cambridge, MA, USA), anti- MYOD1 (Abcam), anti-MyoG (Abcam), anti-MYH3 (Abcam), anti-ATG5 (Cell Signaling, Danvers, MA, USA), anti-ATG7 (Cell Signaling), and anti-β-Actin (Abcam). The secondary antibodies HRP-labeled mouse and rabbit IgG (Cell Signaling) were added at room temperature for 1h. Following each step, the membranes were washed five times with PBS-T for 3 min. The proteins were visualized by enhanced chemiluminescence (Amersham Pharmacia Biotech, Piscataway, NJ, USA) with a Kodak imager (Eastman Kodak, Rochester, NY, USA). Quantification of protein blots was performed using the Quantity One 1-D software (version 4.4.0) (Bio-Rad, Hercules, CA, USA) on images acquired from an EU-88 image scanner (GE Healthcare, King of Prussia, PA, USA).
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10

Western Blot Analysis of Protein Expression

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RAW264.7 cell and BMDM lysates were extracted with radioimmunoprecipitation assay (RIPA) lysis buffer (BestBio, Shanghai, China, Cat#: BB-3201) for total protein isolation and a Nuclear Protein Extraction Kit (Solarbio, Beijing, China, Cat#: R0050) for nuclear protein isolation according to the protocol recommended by the manufacturers. Western blotting was performed using sodium dodecyl sulfate–polyacrylamide gel electrophoresis (SDS–PAGE) and polyvinylidene difluoride (PVDF) membranes. After being blocked with 5% non-fat milk, the membranes were incubated with primary antibodies against collagen I (1:50, Abcam, Cat#: ab270993), NR3C2 (1:1,000, Proteintech, Cat#: 21854-1-AP), TGF-β1 (1:1,000, Abcam, Cat#: ab215715), α-SMA (1:1,000, ABclonal, Cat#: A17910), and vimentin (1:1,000, Abcam, Cat#: ab8978) overnight at 4°C. The next day, the blots were incubated with fluorescein-conjugated secondary antibodies at 1:10,000–1:20,000 for 1 h at room temperature and scanned with a Dual Color Infrared Laser Imaging Scanner (Odyssey, LICOR, Lincoln, NE, USA). Protein expression was measured with ImageJ by quantifying the density of the target total protein relative to GAPDH (1:1,000, Proteintech, Cat#: 60004-1-lg), beta-tubulin (1:1,000, Affinity, Cat#: T0023), or the target nucleoprotein relative to proliferating cell nuclear antigen (PCNA) (1:1,000, Proteintech, Cat#: 10205-2-AP).
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