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14 protocols using radioimmunoprecipitation assay (ripa)

1

Protein Extraction and Western Blot Analysis

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Radioimmunoprecipitation assay buffer containing phosphatase inhibitor and protease inhibitor from Sangon Biotech Co., Ltd. (Shanghai, China) was added to kidney tissue to prepare tissue homogenate. Kidney tissue protein was extracted with a bicinchoninic acid protein extraction kit, and protein concentration was determined according to the manufacturer’s instructions (Beyotime Institute of Biotechnology, Jiangsu, China). Samples were separated by 10% SDS-PAGE and transferred to polyvinylidene fluoride membranes. Membranes were blocked with 5% nonfat dry milk in TBST buffer at 37 °C for 2 h, then polyvinylidene fluoride membranes were incubated with primary antibody overnight at 4 °C. Antibodies were purchased from Proteintech (Wuhan, Hubei, China) and GenScript Corporation (Jiangsu, China). Subsequently, the membrane was incubated with the secondary antibody for 2 h at 37 °C and then washed 5 times with TBST. Subsequently, fluorescence intensity was measured by incubation with an enhanced chemiluminescence reagent (Beyotime Institute of Biotechnology, Nantong, China). Bands were quantified using ImageJ software v1.5 (USA).
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2

Western Blot Analysis of OVCAR-3 Cells

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OVCAR-3 tumor cells at 48 h were lysed in radioimmunoprecipitation assay (Sangon Biotech Co., Ltd.) lysate containing phenylmethanesufonyl fluoride and centrifuged at 8,000 × g for 10 min at 4°C. Supernatant was collected to determine the concentration of proteins using a bicinchoninic acid protein assay kit (Pierce Biotechnology, Inc., Rockford, IL, USA). A total of 25 µg protein per cell lysates was then subjected to 10% SDS-PAGE and transferred onto a polyvinylidene fluoride membrane (Merck KGaA, Darmstadt, Germany). The membrane was blocked in Tris-buffered saline/Tween 20 (TBST) with 5% non-fat milk for 1 h, and subsequently incubated with rabbit anti-human extracellular signal-regulated kinase 1 (ERK1; ab17942), ERK2 (ab32081) or matrix metalloproteinase-9 (MMP-9; ab38898; all Abcam, Cambridge, UK) monoclonal antibodies (1:100) overnight at 4°C, then incubated with horseradish peroxidase labeled goat anti-rat secondary antibody (1:1,000; ab7010; Abcam) at room temperature for 1 h. Subsequently, the membrane was washed using the X1 TBST buffer for 10 min three times. Detection was performed using the development of X-ray after chromogenic substrate with an enhanced chemiluminescence method. In addition, β-actin (Sigma-Aldrich) served as the internal control.
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3

Protein Expression Analysis via Western Blot

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Cells were first lysed with adioimmunoprecipitation (RIPA; Sangon Biotech) lysate mixed with phenylmethanesufonyl fluoride (PMSF; Sigma-Aldrich). Then the supernatant was collected by means of centrifugation, and protein concentrations were measured with the BCA Protein Assay Kit (Pierce, Rockford, IL, USA). Afterward, 25 μg of protein was subjected to a 12% SDS-PAGE and then transferred onto a polyvinylidene difluoride (PVDF) membrane (Millipore, Billerica, MA, USA). The membranes were blocked with TBST (0.1% Triton in PBS) containing 5% nonfat milk for 1 h. Then the membrane was incubated with primary antibodies to INPP4A, P27, P21, and GAPDH (1:1,000 dilution; Santa Cruz Biotechnology, Santa Cruz, CA, USA), Bax, Bcl-2, caspase 3, E-cadherin, N-cadherin, Snail, and vimentin (1:100 dilution; Invitrogen) overnight at 4°C. The membrane was then probed with horseradish peroxidase-labeled appropriate secondary antibody (1:2,000 dilution; Santa Cruz Biotechnology) at room temperature for 1 h. After incubation with a chromogenic substrate, the protein bands were detected using the enhanced chemiluminescence (ECL) method. GAPDH served as the internal control to normalize the expression of target proteins.
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4

Western Blot Analysis of TGF-β Signaling

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All transfected cells were seeded into 6-well tissue culture plates (1–2×106) at 37°C and lysed using 200 µl protein (RIPA; Sangon Biotech Co., Ltd., Shanghai, China). The protein concentration was determined using a Bicinchoninic Acid Protein Assay kit (Sangon Biotech Co., Ltd.). The proteins were separated using 12% SDS-PAGE and transferred onto nitrocellulose membranes (Bio-Rad Laboratories, Inc.). Following blocking of the membranes using 5% nonfat milk in TBST, the membranes were incubated with anti-p-SMAD3 (#9520; dilution 1:2,000; Cell Signaling Technology, Inc., Danvers, MA, USA), anti-TGF-β (#3709; dilution, 1:2,000; Cell Signaling Technology Inc.) and β-actin (#4970; dilution 1:2,000; Cell Signaling Technology, Inc.) antibodies at 4°C overnight. Following washing with TBST, the membranes were incubated with a goat anti-rabbit secondary antibody (#A16110; 1:5,000; Pierce; Thermo Fisher Scientific, Inc.) at 37°C for 1 h, and the blots were detected using an enhanced chemiluminescent reagent (#G-21234; Pierce; Thermo Fisher Scientific, Inc.) and quantified using Image Lab 3.0 (Bio-Rad Laboratories, Inc.).
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5

Western Blot Analysis of JUND

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Total protein was isolated from tissues or cells by RIPA (Sangon, Shanghai, China). Equal amounts of each sample were loaded and separated by 10% SDS-PAGE. Proteins were transferred from gel to PVDF membranes (Millipore, USA) and blocked with 5% silk milk for 1 h. at room temperature. The membranes were then incubated with specific primary antibodies: anti-JUND (1:1000, CST, Beijing); anti-β-Actin (1:2500, CST, Beijing) overnight at 4°C. Subsequently, the membranes were incubated with HRP-conjugated antibody for 2 h at normal temperature. The blot signals were washed by TBST and visualized with an ECL Kit (Solarbio, Beijing, China). Images were taken by an ImageQuant LAS4000 Biomolecular Imager (GE Healthcare).
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6

Protein Expression Analysis of Transfected Cells

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After 48 h of cell transfection using Lipo8000™ Transfection Reagent (Beyotime), cells were collected in order to extract proteins from them using cell lysates (RIPA, Sangon Biotech, Shanghai, China; Cocktail, MCE, Shanghai, China). The concentration of protein in the total cell lysates was determined using the Enhanced BCA Protein Assay Kit (Beyotime). The protein was subjected to immunoblotting as described previously using the 12.5% Non-Closure SDS-PAGE Color Preparation kit (Sangon Biotech). The antibodies used were anti-Aurora B antibody (Huabio, Hangzhou, China 1:1000 for WB), anti-glyceraldehyde-3-phosphate dehydrogenase (GAPDH, Zenbio, Chengdu, China, 1:5000 for WB), and HRP-conjugated anti-mouse (Huabio, 1:4000 for WB) or anti-rabbit immunoglobulin antibodies (Huabio, 1:50000 for WB). The expression of proteins was monitored using Immobilon Western Chemiluminescent HRP Substrate (Millipore, Burlington, MA, USA) reagent and visualized with an ECL detection system (Thermo Scientific, Waltham, MA, USA).
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7

Western Blot Analysis of mTOR Pathway

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HeLa cells incubated at 48 h in each group were lapped with radioimmunoprecipitation buffer (RIPA; Sangon Biotech) containing phenylmethanesufonyl fluoride (PMSF; Sigma-Aldrich), followed by centrifugation at 12,000 rpm for 10 min at 4°C. Supernatant was collected for the detection of protein concentrations using BCA protein assay kit (Pierce, Rockford, IL, USA). For Western blot analysis (17 ), 30 µg protein per cell lysate was subjected onto a 12% sodium dodecylsulfate-polyacrylamide gel electrophoresis (SDS-PAGE) and then transferred onto a polyvinylidencefluoride (PVDF) membrane (Millipore). The PVDF membrane was blocked in Tris-buffered saline Tween (TBST) containing 5% nonfat milk for 1 h. After that, the membrane was incubated with rabbit anti-human antibodies (mTOR, PI3K, P70, 1:100 dilution; Invitrogen) and then overnight at 4°C. The membrane was then incubated with horseradish peroxidase-labeled goat anti-rat secondary antibody (1:1,000 dilution) at room temperature for 1 h. Finally, PVDF membrane was washed with 1× TBST buffer for 10 min three times. Detection was conducted using the development of X-ray after chromogenic substrate with an enhanced chemiluminescence (CEL) method. Additionally, GAPDH served as the internal control.
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8

Western Blot Analysis of Signaling Proteins

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Cells were lysed with radioimmunoprecipitation assay (RIPA; Sangon Biotech, P.R. China) containing phenylmethanesufonyl fluoride (PMSF; Sigma-Aldrich). After centrifugation at 12,000 bmp for 10 min, the supernatant was collected and the protein concentration was detected by the BCA protein assay kit (Pierce, Rockford, IL, USA). An equal amount of extracts was subjected to 10% SDS-polyacrylamide gel electrophoresis (SDS-PAGE), transferred to a polyvinylidene difluoride (PVDF) membrane (Millipore, Darmstadt, Germany), and probed with primary antibodies to INPP4A, GSK3β, Bax, Bcl-2, pro-caspase 3, cleaved-caspase 3, c-Myc, cyclin D1, P27, β-catenin, p-β-catenin, and GAPDH (1:1,000 dilution; Santa Cruz Biotechnology, Santa Cruz, CA, USA) overnight at 4°C. Followed by exposure to horseradish peroxidase-labeled appropriate secondary antibody (1:5,000 dilution; Santa Cruz Biotechnology) for 2 h, the blots were incubated with a chemiluminescent substrate kit (Pierce) and then detected using the enhanced chemiluminescence (ECL) method. GAPDH served as the internal control.
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9

Western Blot Analysis of CSTB and PI3K Pathway

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Cells were washed with ice-cold PBS and lysed with radioimmunoprecipitation (RIPA; Sangon Biotech) solution containing phenylmethanesufonyl fluoride (PMSF; Sigma-Aldrich, St. Louis, MO, USA). The protein concentration was measured using BCA Protein Assay Kit (Pierce, Rockford, IL, USA). Then an equal amount of protein per lane was separated on a 12% sodium dodecylsulfate-polyacrylamide gel electrophoresis (SDS-PAGE). The bands were then transferred onto a polyvinylidencefluoride (PVDF) membrane (Millipore). After being blocked in Tris-buffered saline Tween (TBST) containing 5% nonfat milk, the membrane was incubated with primary antibodies overnight at 4°C. GAPDH served as the internal control. The antibody against CSTB was purchased from Novus International Inc. (Saint Charles, MO, USA). Antibodies against p-PI3K (pY-458), p-Akt (pS-473), p-mTOR (pS-2448), and GAPDH were obtained from Santa Cruz Biotechnology (Santa Cruz, CA, USA). Then the membrane was incubated with horseradish peroxidase-labeled secondary antibody (Santa Cruz Biotechnology) at room temperature for 1 h. After being washed three times with 1× TBST buffer, the bands were detected with a chromogenic substrate using the enhanced chemiluminescence (ECL) method and further quantified by the ImageQuant software (Molecular Dynamics, Sunnyvale, CA, USA).
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10

Western Blot Analysis of Bcl-2 in HAoSMCs

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HAoSMCs were harvested and RIPA (Sangon, Shanghai, China) was used to extract proteins. Proteins were denatured and 10% SDS/PAGE gel was used to perform electrophoresis. After gel transfer (PVDF membrane) and blocking (FBS containing 5% non-fat milk) for 2 h, blotting was performed using rabbit primary antibodies of Bcl-2 (1:1200, ab59348, Abcam) and GAPDH (1:1200, ab9485, Abcam), as well as secondary antibody of HRP goat anti-rabbit (IgG) (1:1000; ab6721; Abcam). ECL detection reagent (EMD Millipore) was used for signal development, and ImageJ v1.46 software was used to normalize gray values.
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