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40 protocols using ripa lysate

1

Western Blot Analysis of Autophagy Proteins

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The collected cells were lysed with RIPA lysate (Thermo Scientific™, USA), and centrifuged for 10min at 16,000*g to prepare the homogenate. Then, the proteins were quantified using the BCA kit (Thermo Scientific™, USA). Subsequently, the proteins were sealed with 5% skim milk, and added with primary antibodies ATG14, LC3I/II, and β-actin (R&D, USA) at a ratio of 1:1000, for a 90-minute incubation. Thereafter, horseradish peroxidase-coupled goat anti-mouse/rabbit IgG (R&D, USA) was added as the secondary antibody (1:1000). Finally, the Western blot was detected using enhanced chemiluminescence reagent (ECL; Thermo Fisher Scientific, USA), and Amersham Prime ECL Plus detection system was used for detection.
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2

Western Blot Analysis of Protein Expression in A549 and A549/DDP Cells and Their Exosomes

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The total protein of A549 cells, A549/DDP cells, A549-exo, and A549/DDP-exo were extracted using RIPA lysate (89901; Thermo Scientific, USA) and Total exosomal RNA& Protein isolation kit (4478545; Invitrogen), and the total protein concentration of each sample was detected. An equal amount of total protein was taken to perform electrophoretic separation using sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE). Subsequently, proteins in SDS-PAGE were transferred to polyvinylidene fluoride (PVDF) membranes using the wet transfer method. PVDF membranes were closed with 5% bovine serum protein (ST023-50 g; Beyotime, China) for 1 h. PVDF membrane was then added with primary and secondary antibodies of target proteins. The antibody information is shown in Supplementary Table 1. PVDF membranes were color developed using Novex™ ECL Kit (WP20005; Invitrogen), and images were collected using an Axygen® Gel Imaging System (GD-1000; Corning, USA).
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Western Blot Analysis of Kidney Proteins

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Protein from collected kidney tissues and HK-2 cells were extracted using RIPA lysate (Thermo Fisher Scientific). The total protein concentrations were determined using the bicinchoninic acid (BCA) protein assay (Pierce, Rockford, IL, USA). Samples with equal amounts of protein were separated electrophoretically by 10% sodium dodecyl sulfate–polyacrylamide gel electrophoresis (SDS-PAGE) and electroblotted onto polyvinylidene difluoride (PVDF) membranes (Millipore, Billerica, MA, USA). Following blocked with 5% skim milk powder at room temperature for 2 h, the membranes were incubated with indicated antibodies including phosphorylated IκBα (p-IκBα), SIRT1, and inducible nitric oxide synthase (iNOS) (1:1000; Santa Cruz Biotechnologies, Santa Cruz, CA, USA) at 4 °C overnight. β-actin was used as a loading control. All the blots were subsequently incubated with horseradish peroxidase-conjugated anti-rabbit IgG antibody (Santa Cruz Biotechnology) for 1 h. Finally, the proteins were detected by an enhanced chemiluminescent detective system (Amersham Biosciences UK Ltd., Little Chalfont, UK).
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4

Western Blot Analysis of Kidney Proteins

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Kidney tissue was added to RIPA lysate (Thermo Fisher Scientific, United States) containing phosphatase inhibitor and protease, followed by being disrupted by an ultrasound. Then, the sample was centrifuged at 14,000 g at 4°C for 15 min, and the supernatant was collected. The BCA protein detection kit (Pierce, United States) was utilized for measuring the protein concentration. 20 μg protein was loaded. After 10% sodium dodecyl sulfate (SDS)-polyacrylamide gel electrophoresis, the product was transferred to a polyvinylidene fluoride (PVDF) membrane (Millipore, Germany). The membrane was blocked with 5% bovine serum albumin at 37°C for 2 h, and was incubated with primary antibodies overnight at 4°C. Antibodies included EIF4B (1/10000; ab134138; Abcam, United States), RICTOR (1/1000; ab219950; Abcam, United States), PRKCB (1/2000; ab195039; Abcam, United States), and GAPDH (1/10000; ab8245; Abcam, United States). After being washed 3 times with TBST, the membrane was incubated with HRP-labeled secondary antibody (1/2000; ab7097; Abcam, United States) for 2 h at 37°C. After being washed three times, the protein expression was detected by a gel quantitative analysis system following treatment with ECL (Solarbio, Beijing, China) with GAPDH as the reference control.
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5

Western Blot Analysis of Colon Tissue

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The colon tissue of mice was analyzed with RIPA lysate (ThermoFisher Inc.). Total protein in the supernatant collected was quantified by BCA method. Total protein was then subjected to SDS agarose gel electrophoresis and then transferred into PVDF membrane. The primary antibodies (Abcam, England) were added and incubated with bands overnight at 4°C. Following TBST washing, the protein bands were then incubated with the secondary antibody (Abcam, England) at room temperature for 2 h. Then, the ECL chemiluminescence reagent (ThermoFisher Inc.) was used for color development and chemiluminescence imaging.
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6

Western Blot Analysis of GPR43 Expression

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The cultured CD4+ T cells under Th17/Treg differentiation conditions were lysed in RIPA lysate (Thermo Scientific, USA) plus protease inhibitors (Beyotime, China). Proteins were subjected to electrophoresis separation and then transferred to polyvinylidene fluoride membranes. The membranes were incubated with 5% milk for 1 h, followed by incubating with the GPR43 antibody (1:800, Genetex) overnight at 4°C. GAPDH (1:5,000, Elabscience) was applied as a loading control. The membranes were washed in TBST, incubated with a corresponding secondary antibody (anti-rabbit or anti-mouse IgG, 1:5,000, Elabscience) for 1 h, and washed again by TBST. The protein bands were visualized by an enhanced chemiluminescence (ECL) system (ChemiScope 5600; Hengmei Technology, China).
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7

Western Blot Analysis of Cellular Proteins

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BEAS-2B cells and LC cells were collected, and total protein was extracted using RIPA lysate (Thermo Fisher Scientific, Waltham, MA, USA). BCA kit (Beyotime, Shanghai, China) was used to determine the concentration of total cellular protein. Sodium Dodecyl Sulfate Polyacrylamide Gel Electrophoresis was used to separate protein, and then the protein was transferred to polyvinylidene fluoride (PVDF) membrane. After blocking the PVDF membrane with 5% bovine serum albumin, the PVDF membrane was incubated with diluted primary and biotin-coupled secondary antibodies. Enhanced chemiluminescence reagent (ThermoFisher Scientific, Waltham, MA, USA) was applied for development, and observation and photography were performed by a ChemiDoc XRS + gel imaging system (Bio-Rad, Hercules, CA, USA). GAPDH was used as the internal reference. Analysis of the target protein was performed by Image J software (National Institutes of Health, Bethesda, MD, USA). All antibodies above were bought from Abcam (Cambridge, UK). Antibody information was shown in Table 2.
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8

Colon Pro-inflammatory Cytokine Assay

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Colon samples were homogenised in RIPA lysate (Thermo Fisher Scientific, USA), and the supernatant was collected for assessments of pro-inflammatory cytokines (n = 4 for each group). TNF and IL-6 were detected using the commercial ELISA kits (Biolegend, USA), according to the instruction from the manufacturer. The final results were represented as the ratio of cytokine concentration to total protein content, which was determined using a BCA reagent kit (Beyotime Institute of Biotechnology, China).
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9

Quantification of STAT3 Protein in Lung Tissues

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Total protein was extracted from lung tissues or AMs using RIPA lysate containing protease inhibitors (Thermo Fisher Scientific, Inc.). The enhanced BCA protein assay kit (Beyotime Institute of Biotechnology) was used to quantify the protein concentration. Protein (50 µg/per lane) were separated via 10% SDS-PAGE, transferred onto PVDF membranes and blocked with non-fat milk for 1 h at room temperature. The membranes were incubated with primary antibodies against STAT3 (cat. no. ab68153; 1:1,000; Abcam) and GAPDH (cat. no. ab8245; 1:1,000; Abcam) overnight at 4°C. Following the primary incubation, membranes were incubated with HRP-conjugated anti-rabbit IgG secondary antibody (cat. no. ab6721; 1:5,000; Abcam) at room temperature for 1 h. Protein bands were visualized with ECL detection reagents (Cytiva), and blots were semi-quantitated using ImageJ software (version V1.8.0; National Institutes of Health).
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10

Protein Extraction and Western Blot Analysis

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Firstly, the total protein was extracted by RIPA lysate (Thermo Fisher Scientific, USA) and analyzed by BCA protein quantitative kit (Thermo Fisher Scientific, USA). After that, the proteins were separated by 10% SDS-PAGE electrophoresis and transferred to PVDF membrane (Washington, New York). At room temperature, the membrane was sealed in 5% bovine serum albumin (BSA) for 1 h, and then incubated with primary antibody at 4°C overnight. The antibody was purchased from The antibodies were purchased from Cell Signaling Technology and were used at manufacturer-recommended dilutions. After that, the blot was incubated with HRP-conjugated secondary antibody (Santa Cruz, USA) at room temperature for 1 h. Finally, ECL kit (Thermo Fisher Scientific, USA) was used to observe the protein bands. GAPDH was used as internal reference.
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