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14 protocols using clarity western ecl substrate reagent

1

Western Blot Analysis of EMT Markers

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Cell lysates were harvested from A549 cells, and proteins were resolved by SDS-PAGE and electro transferred to PVDF membranes where primary antibodies against E-cadherin (1:2000; #610181, BD Biosciences, San Jose, CA, USA), N-cadherin (1:1000; #610921, BD Biosciences, USA), and vimentin (1:500; sc-6260, Santa Cruz Biotechnology, Dallas, TX, USA) were used. Corresponding secondary horseradish peroxidase-conjugated antibodies (1:2000; Santa Cruz Biotechnology, Dallas, TX, USA) were used to detect primary antibodies on the membrane. Membranes were developed using BioRad Clarity Western ECL Substrate reagent in BioRad ChemiDoc imaging system (BioRad, Carlbad CA, USA). Protein levels were quantified by densitometry using Fiji open-source software (Image J version 1.52p; National Institutes of Health, Bethesda, MD, USA). Whole blots can be found in the Supplementary Materials (Figure S6).
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2

Western Blot Analysis of Recombinant Virus Proteins

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Twenty-four hours after transduction with one of the recombinant viruses—rMVA-k1, rMVA-k2, rMVA-k5, rMVA-M001, rMVA-hlHA or rMVA-NP+M1 (multiplicity of infection (MOI) was 2)—BHK-21 cells were collected, washed three times with PBS, resuspended in RIPA lysis buffer containing 1% NP-40 and lysed using ultrasonication. Cell debris was removed by centrifugation (15,000× g, 15 min, 4). A PageRuler Plus protein marker (Thermo Fisher Scientific Inc., Waltham, MA, USA) and the cell lysates were subjected to 12% SDS–PAGE (each sample contained 20 micrograms of protein). After electrophoresis under reducing conditions, the proteins were transferred to an Immun-Blot LF PVDF membrane (Bio-Rad Laboratories, Inc., Hercules, CA, USA) using wet electrophoretic transfer. The membranes were blocked in PBS containing 5% skim milk powder and 0.1% Tween 20 and then incubated overnight at +4 °C with antibodies against the 6x-His tag (HIS. H8-HRP, Invitrogen, Carlsbad, CA, USA) at a dilution of 1:20,000 or antibodies against beta-actin (AC-15-HRP, Abcam, Cambridge, UK) at a dilution of 1:50,000. Then, the membranes were washed 3 times in PBS with 0.1% Tween 20. Protein complexes were detected using Clarity Western ECL Substrate reagent (Bio-Rad Laboratories, Inc., Hercules, CA, USA) in accordance with the manufacturer’s recommendations and visualized using X-ray film (Fujifilm, Tokyo, Japan).
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3

Western Blot Analysis of Nrf2 and Keap1

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Total protein of MAC-T cells was extracted using the Total Protein Extraction Kit (Sango Biotech, Shanghai, China) for the detection of Nrf2 and Keap1 protein expression. The BCA protein assay kit was used to measure total protein concentrations, and 20 μg protein was separated by SDS-PAGE (Genscript, Nanjing, China) at 140 V for 45 min and electrophoretically transferred to polyvinylidene fluoride membranes (GE Healthcare, Wasukesha, WI, USA). Membranes were blocked with 5% skim milk buffer for 1 h, and then incubated overnight at 4 °C with primary antibody against Nrf2, Keap1 or GAPDH (Proteintech, Wuhan, China). Subsequently, membranes were washed 3 times with Tris-HCl Tween buffer (TBST) and incubated at room temperature for 1 h with secondary antibody (HRP-conjugated Affinipure Goat Anti-Mouse IgG, Proteintech, Wuhan, China). Then membranes were washed 3 times with TBST, and then were developed with the Clarity Western ECL Substrate Reagent (Bio-Rad, Hercules, CA, USA). Finally, the membranes were visualized using the ChemiDocTM MP System (Bio-Rad, Herculers, CA, USA), and the band densities was measured using Image Lab 6.0.1 software (Bio-rad, Herculers, CA, USA).
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4

EP Receptor and β-Catenin Expression

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Protein samples were loaded equally based on concentration, fractionated using polyacrylamide gel electrophoresis (PAGE), and transferred onto a nitrocellulose membrane. EP receptors’ protein expression was tested using the primary rabbit polyclonal antibodies anti-EP1 (Santa Cruz Biotechnology), anti-EP2 (Santa Cruz Biotechnology), anti-EP3 (Santa Cruz Biotechnology), and anti-EP4 (Santa Cruz Biotechnology). The anti-EP3 antiody recognizes all three isoforms (α, β, γ) of the EP3 protein. The levels of β-catenin were tested using the primary antibodies against phospho-β-catenin (Ser552) and non-phospho β-catenin (Ser33/37/Thr41) (Cell Signaling), respectively. Rabbit polyclonal anti-phospho-β-catenin (Ser552) antibody recognizes the active form phosphorylated by protein kinase A (PKA), and rabbit monoclonal anti-nonphospho-β-catenin (Ser33/37/Thr41) antibody recognizes the stabilized form of β-catenin that is functionally active. For comparative analysis, anti-GAPDH (Abcam) was used on the same blots. Horseradish peroxidase-conjugated secondary antibodies used were α-rabbit (Abcam), α-goat (Santa Cruz Biotechnology), or α-mouse (Abcam). Clarity Western ECL Substrate reagent (Bio-rad) was used for detection by Perkin Elmer Geliance 600 Imaging System.
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5

Western Blot Analysis of PDK4 Protein

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Cells were lysed in Triton-X lysis buffer containing 50 mM Tris-HCl, pH 7.5, 150 mM NaCl, 0.5% Triton-X-100, 1 mM phenylmethylsulfonyl fluoride, 1 mM DTT, and 1 × Complete protease inhibitor cocktail (Roche), after which cellular debris was removed by centrifugation. Samples were resuspended in 4× Laemmli sample buffer and denatured at 95 °C. Proteins were separated by 10% sodium dodecyl sulfate–polyacrylamide gel electrophoresis (SDS-PAGE) gel and immobilized onto Nitrocellulose-membranes (Thermo Fisher Scientific). Primary antibodies against PDK4 (PA5-13776, Thermo Fischer Scientific), and actin (ACTN05 C4, Abcam, Cambridge, UK), were used together with anti-mouse or anti-rabbit HRP-conjugated antibodies produced in goats (Invitrogen, Thermo Fisher Scientific). Chemiluminescence reactions were generated using Clarity Western ECL Substrate reagent (Bio-Rad Laboratories) and measured using ChemiDoc MP Imaging system (Bio-Rad Laboratories). Quantitation of signals was performed using Image Lab software (Version 6.0.0 build 25, Bio-Rad Laboratories).
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6

Western Blot Protein Detection

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Protein samples were separated by electrophoresis on acrylamide/bisacrylamide gels at the appropriate concentration, transferred to a nitrocellulose membrane, and probed with the corresponding primary antibodies followed by incubation with appropriate horseradish peroxidase-conjugated secondary antibodies (Bio-Rad). See the list at the end of the section with all the info related to antibodies used. The proteins were detected by chemiluminescence using Clarity Western ECL substrate reagent (Bio-Rad cat number 170-5061) and acquired with a ChemiDoc instrument (Bio-Rad). Quantification was conducted using the Bio-Rad ImageLab software.
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7

Immunoblotting of Pluripotency Markers

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mESCs and NPCs were harvested and lysed in RIPA lysis buffer (150 mMNaCl, 1% NP-40, 0.5% sodium deoxycholate, 0.1% SDS, and 25 mM Tris (pH = 7.4)). The 6% in-house made SDS-PAGE gels were used to separate the WAPL and RAD21 proteins, and the 10% SDS-PAGE gels was used for SOX2, OCT4 and NANOG. The separated protein was transferred to a pre-activated PVDF membrane using Trans-Blot Turbo Transfer System (Bio-Rad). The blots were incubated with the following primary antibodies overnight at 4°C: (1) WAPL (1:1,000, 16370-1-AP, Proteintech), (2) RAD21 (1:1,000, ab154769, Abcam), (3) SOX2 (1:1,000, D9B8N, Cell Signaling), (4) OCT4 (1:1,000, D6C8T, Cell Signaling), (5) NANOG (1:1,000, D2A3, Cell Signaling), and (6) HSP90 (1:2,000, 13171-1-AP). After incubation, the blots were washed 3 times with TBS-0.1% Tween-20. The blots were then incubated with secondary antibody against rabbit IgG at room temperature for 1 h, following by 3-time TBS-0.1% Tween-20 washing. The proteins attached with antibodies were hybridized with Clarity Western ECL Substrate reagent (Bio-Rad) and visualized in a ChemiDoc MP Imaging System (Bio-Rad).
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8

Western Blot Analysis of SOX2 and GFP

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Cells were harvested and lysed in RIPA lysis buffer (150 mM NaCl, 1% NP‐40, 0.5% sodium deoxycholate, 0.1% SDS, and 25 mM Tris (pH = 7.4)). A 10% SDS–PAGE gels were used to separate proteins. Protein was transferred to a pre‐activated PVDF membrane using Trans‐Blot Turbo Transfer System (Bio‐Rad). The blots were incubated with the following primary antibodies overnight at 4°C: SOX2 (1:1,000, D9B8N, Cell Signaling), GFP (1:1,000, ab6673, abcam) and as loading control HSP90 (1:2,000, 13171‐1‐AP). After incubation, the blots were washed three times with TBS‐0.1% Tween‐20. The blots were then incubated with secondary antibody against rabbit IgG at room temperature for 1 h, following by 3‐time TBS‐0.1%‐Tween‐20. The proteins attached with antibodies were hybridized with Clarity Western ECL Substrate reagent (Bio‐Rad) and visualized in a ChemiDoc MP Imaging System (Bio‐Rad).
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9

Quantifying Asporin Protein Levels in VICs

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Protein lysates were isolated from VICs using ice-cold RIPA lysis buffer (250 mM NaCl, 50 mM Tris pH 7.5, 0.1% SDS, 1% Triton X, and 5 mM EDTA) containing protease inhibitor mixture (Genetix GX2811AR) and phosphatase inhibitor mixture (Genetix GX0211AR) according to the manufacturer's instructions. Western blots were performed as described previously (Evans-Anderson et al., 2008) and the membranes were incubated with secondary antibody (1 : 4000; Abcam ab97051). Immunoblots were developed using chemifluorescent detection with the Clarity Western ECL Substrate reagent (Bio-Rad 1705060) and scanned using ChemiDoc MP (Bio-Rad). Signal intensities were quantified with the ImageJ software (NIH). Asporin has a dilution 2.5 μg/ml (Abcam, ab58741). GAPDH (1 : 2000; BioBharati, BB-AB0060) antibody reactivity was used as a loading control. Statistical significance was determined by Student's t-test (p < 0.05).
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10

Protein Quantification and Western Blot Analysis

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Cells were lysed in Triton-X lysis buffer containing 50 mM Tris–HCl, pH 7.5, 150 mM NaCl, 0.5% Triton-X-100, 1 mM Phenylmethylsulfonyl fluoride, 1 mM DTT, and 1 × Complete protease inhibitor cocktail (Roche), after which cellular debris was removed by centrifugation. Isolated protein concentration was measured by Tecan Infinite M200 and used as equal concentrations in each gel. Samples were resuspended in 4 × Laemmli sample buffer and denatured at 100 °C. Proteins were separated by 10% sodium dodecyl sulfate–polyacrylamide gel electrophoresis (SDS-PAGE) gel and immobilized onto Nitrocellulose-membranes (Thermo Fisher Scientific). Primary antibody signals were detected with goat-anti-mouse or goat-anti-rabbit HRP-conjugated antibodies (Invitrogen, Thermo Fisher Scientific) and chemiluminescence reactions using Clarity Western ECL Substrate reagent (Bio-Rad Laboratories) detected using ChemiDoc MP Imaging system (Bio-Rad Laboratories). Representative blots of three replicate experiments are shown. Signal intensities were quantified with ImageJ for relative amounts as a ratio to loading control, and statistical significances of treated samples compared to control samples were assessed with two-tailed t-test.
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