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982 protocols using ab9485

1

Protein Expression and Detection Protocol

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Cells were rinsed in ice-cold PBS, extracts were prepared in lysis buffer (50 mM Tris HCl pH 7.5, 1 mM EDTA, 1 mM EGTA, 1 mM NaV3O4, 10 mM sodium β-glycerophosphate, 50 mM NaF, 5 mM sodium pyrophosphate, 270 mM sucrose and 1% Triton X-100) supplemented with protease inhibitor cocktail (cat num. 11836153001, Roche) and 1 mM phenylmethylsulfonyl fluoride. Samples were electrophoresed in SDS–polyacrylamide gels and blotted onto nitrocellulose membranes. Blocked membranes were incubated overnight at 4 °C with the following antibodies: anti-human GAPDH (1:10000, ab9485, Abcam); anti-Cleaved PARP1 [E51] (1:1000, ab32064, Abcam) and anti-cleaved caspase 3 (1:10000, ab9485, Abcam) and anti-γH2AX (Ser139) (1:1000, ab2577, Cell Signaling). After washing, the membranes were incubated with a secondary conjugated horseradish peroxidase antibody for 1 h at room temperature and then revealed with SuperSignal West Pico Chemiluminescent Substrate (cat num. 34580, PierceChemical).
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2

Automated CFTR and TALEN Protein Detection

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Total protein isolation was carried out as described in the previous section. Protein samples (1 mg) were mixed with 5 × fluorescence detection master mix before loading onto each of the capillary reaction chamber. For CFTR protein detection, five microliters of 1:400 diluted anti-mouse CFTR antibody (MAB 596, University of North Carolina, Chapel Hill, NC, USA) and 5 μL of 1:400 diluted anti-rabbit GAPDH antibody (ab9485, Abcam) were used for each lane. For TALEN protein detection, 5 microliters of 1:400 diluted mouse-anti-flag antibody and 5 μL of 1:400 diluted anti-rabbit GAPDH antibody (ab9485, Abcam) were used for each lane. Ten microliters of combined secondary anti-M and anti-R rabbit antibody were used for each sample. The whole analysis including protein separation, primary and secondary antibody probing, and chemifluorescence detection, was done automatically using the JESS system (ProteinSimple, San Jose, CA, USA) under 5 h. Results from 24 samples were displayed and analyzed using the Compass analysis software.
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3

Protein Extraction and Western Blot Analysis

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Proteins were extracted from samples using RIPA Kit (Beyotime Biotechnology, China). The protein concentration was quantified using Bradford method. Proteins were separated using sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS‐PAGE) and thereafter transferred to PVDF membrane which was blocked in Tris‐Buffered Saline Tween (TBST) containing 0.1%Tween‐20 and 5% low‐fat milk for 1 h. The primary antibody was added and incubated overnight at 4°C and then the secondary antibodies were added and incubated at room temperature for 1 h. Lastly, the ECL solution was applied to the membranes, and the membranes together with a film were placed in a visualizer for further analysis. The ImageJ software was used to measure the intensities. Primary antibodies for NRAS (ab154291), BRAF (ab151286), MEK1/2 (ab178886), pMEK1/2 (phospho s218, s222 and s226, ab78132), ERK1/2 (ab17942), pERK1/2 (phospho thr202 and thr204, ab214362), and GAPDH (ab9485) were all purchased from Abcam, whereas antibodies for PI3K‐p110α (#4249), PI3K‐p110β (#3011s), AKT (#9272), pAKT‐ser473 (#4060), pAKT‐thr308 (#2965), PTEN (#4005), Cyclin D1 (#2926), and p27 (#3686) were purchased from Cell Signaling. HRP labeled goat anti‐mouse and goat anti‐rabbit as secondary antibodies were purchased from Beyotime Biotechnology.
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4

Western Blot Analysis of NLRP3 Inflammasome

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Whole cells and kidney glomeruli from five kidney tissues of 5 rats were mixed and extracted using the radio-immunoprecipitation assay buffer in the presence of protease inhibitors (Roche, Mannheim, Germany) at 4 ° C. Protein concentrations were measured using a Direct Detect Spectrometer (Merck, Darmstadt, Germany); 30 μg of proteins were electrophoresed by 15% SDS-PAGE as reducing conditions and then transferred onto PVDF membranes (Millipore, Bedford, MA, USA). After blocking with 5% non-fat milk in TBST for 1 h, the membranes were probed with the diluted primary rabbit antibodies against NLRP3 (ab214185, dilution 1: 500; Abcam, Shanghai, China), caspase-1 (ab1872, dilution 1: 1,000; Abcam), IL-1β (ab9722, dilution 1: 1,000; Abcam), and GAPDH (ab9485, dilution 1: 2,000; Abcam) overnight at 4 ° C. Then, the membranes were incubated with horseradish peroxidase-conjugated secondary anti-rabbit antibodies (ab97051, dilution 1: 5,000; Abcam) for 2 h at room temperature and visualized using horseradish peroxidase-conjugated secondary antibody with enhanced chemiluminescence substrate on a BioRad Chemidoc MP system (Bio-Rad). ImageJ software was used to quantify the immunoblots. The fold-changes of the target proteins were normalized to that of GAPDH. All Western blots were repeated 3 times and means of normalized densities were calculated.
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5

Western Blot Analysis of Inflammatory and Signaling Proteins

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Proteins were extracted using RIPA Lysis Solution (P0013C; Beyotime), and the protein concentration was measured using the BCA protein kit (KeyGen Biotech Co., Ltd). The proteins were separated by using SDS‐PAGE and transferred onto polyvinylidene fluoride membranes. The membrane was then incubated with the following primary antibodies: MMP‐13 (1:1000; 18165‐1‐AP, Proteintech), IL‐6 (1:500; 21865‐1‐AP, Proteintech), TNF‐α (1:500; 17590‐1‐AP, Proteintech), JAK1 (1:1000; ab133666, Abcam), p‐JAK1 (1:1000; ab138005, Abcam), STAT3 (1:1000; ab68153, Abcam), p‐STAT3 (1:1000; #9131; Cell Signaling Technology), Wnt1 (1:1000; ab15251, Abcam), β‐catenin (1:500; ab223075, Abcam), and GAPDH (1:1000; ab9485, Abcam). The next day, the membranes were incubated with the secondary antibody, and the intensity of protein expression was detected using ECL chemiluminescence (Beyotime).
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6

Western Blot Protein Detection

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Proteins from samples were isolated using RIPA buffer (Vazyme, Nanjing, China) and were segregated by sodium dodecyl sulfate polyacrylamide gel electrophoresis, and then proteins were transferred onto the polyvinylidene difluoride membranes (Vazyme). The membranes were blocked with 5% skimmed milk (Vazyme). Thereafter, the membranes were incubated with the primary antibodies: anti-Irak2 (1:2000, ab62419, Abcam, Cambridge, UK) or glyceraldehyde 3-phosphate dehydrogenase (1:2500, ab9485, Abcam) overnight. After being rewashed, the membranes were incubated with the secondary antibody (1:3000, ab205718, Abcam) for 2 h. The membranes were analyzed by the ChemiDoc™ MP Imaging System (Bio-Rad) after being treated with ECL kit (Vazyme).
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7

Western Blot Analysis of Muscle Proteins

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Cells were lysed in RIPA Buffer (50 mM Tris-HCl, 0.1M NaCl, 0.5% sodium deoxycholate, 1% IGEPAL CA630, 0.5% SDS, 1mM EDTA) supplemented with 1mM PMSF (Sigma) and protease inhibitors cocktail (Roche). Protein concentration was measured by BCA Protein Assay Kit (Invitrogen). 5–20ug of proteins were run on a 4%–12% or 10% tris-glycine gel (Novex) and transferred to a 0.45 μm nitrocellulose membrane. Membrane was blocked with 2.5% skim milk (BD) in PBS-Tween (PBS with 0.1% Tween 20) for 1 hr at RT. Membrane was incubated with primary antibodies anti-MYOD (1:1000 BD Bioscience, 554130) and anti-myosin heavy chain (DSHB, MF20), anti-TNNT2 (1:1000 Abcam, ab10214) O/N at 4C or with anti-GAPDH (1:1000 Abcam, ab9485) anti-bACTIN (1:1000 Abcam ab20272) for 1hr at RT. After three washes in PBS-Tween, membrane was incubated O/N with anti-mouse IgG HRP (Thermo Fisher Scientific). For detection, ECL (Thermo Scientific, 32106) was used.
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8

Western Blot Analysis of Cellular Proteins

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RIPA buffer (Thermo Scientific) containing Complete EDTA-free protease inhibitor was used to isolate proteins from cells and tissues. Proteins (30 μg) were loaded with a 4–15% TGX gel (BioRad) and then transferred to 0.2 µm PVDF membranes (BioRad). The membranes were blocked in 5% non-fat dried milk/Tris-buffered saline and 0.1% Tween-20 for 1 h at room temperature. Next, the membranes were incubated with primary antibodies: anti-SIPL1 (Abcam, ab79039), anti-MAZ (Abcam, ab85725), anti-AKT (Abcam, ab18785), anti-p-AKT (Abcam, ab38449), anti-P65 (Abcam, ab32536) or anti-p-P65 (Abcam, ab76302), and anti-GAPDH (Abcam, ab9485) overnight, along with horseradish peroxidase-labeled IgG (Abcam, ab205718) at room temperature. The protein bands were detected using enhanced chemiluminescence (Pierce, Rockford, IL, USA). Densitometry analysis was performed using ImageJ software (version 1.36; National Institutes of Health, Bethesda, MD, USA).
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9

Protein Expression Analysis in Brain Regions

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Tissue samples from the hippocampus and prefrontal cortex of offspring were homogenized in extraction buffer (C500006, Sangon Biotech, Shanghai, China) according to the manufacturer’s instructions. Each sample was adjusted to a final protein concentration of 1 μg/μl, mixed with Laemmeli’s sample buffer, and boiled for 5 min. Samples (40 mg) were loaded onto 8% bisacrylamide gels and separated by sodium dodecyl sulphate polyacrylamide gel electrophoresis (SDS-PAGE). Proteins were electrophoretically transferred from gels to polyvinylidene fluoride (PVDF) membranes that were then incubated with the following primary antibodies: anti-BDNF (1:200 dilution, AV41970, Sigma-Aldrich, St. Louis, MO, USA), anti-SERT (1:200, AG1204, Abgent, San Diego, CA, USA), anti-CREB (1:500 dilution, ab31387, Abcam, Cambridge, MA, USA), anti-pCREB (1:500 dilution, ab32096, Abcam), and anti-GAPDH (1:2500 dilution, ab9485, Abcam). Dilutions of peroxidase-conjugated goat anti-rabbit IgG secondary antibody (1:2000 dilution, sc-2004, Santa Cruz Biotechnology, Dallas, TX, USA) were prepared following the manufacturer’s instructions. Immuno-positive bands were visualized using a chemiluminescent method (G:BOX chemiXR5, SYNGEN, Sacramento, CA, USA), and the band densities were determined with the Gel-Pro32 software [39 (link)]. All western blotting experiments were repeated at least three times.
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10

Comprehensive Protein Expression Analysis

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Total protein was extracted followed by concentration measurement utilizing a bicinchoninic acid kit. Protein (50 μg) was separated by sodium dodecyl sulfate–polyacrylamide gel electrophoresis and transferred onto a polyvinylidene fluoride membrane which was then blocked with 5% skimmed milk powder at ambient temperature for 1 h. Next, the membrane was probed with diluted primary rabbit antibodies to Smad2 (ab33875, 1: 1000, Abcam), Smad4 (ab40759, 1: 5000, Abcam), HDAC3 (ab7030, 1: 500, Abcam), TGIF1 (ab52955, 1: 5000, Abcam), cleaved caspase-3 (ab32042, 1: 1000, Abcam), total caspase-3 (ab32150, 1: 1000, Abcam), MMP-2 (ab97779, 1: 2000, Abcam), MMP-9 (ab38898, 1: 1000, Abcam), TGF-βRII (sc-17791, 1: 1000, Santa Cruz Biotechnology, Santa Cruz, CA) and GAPDH (ab9485, 1: 2500, Abcam) overnight at 4ºC. The next day, the membrane was re-probed with HRP-labeled secondary antibody of goat anti-rabbit antibody to IgG H&L (ab97051, 1: 2000, Abcam) for 1 h. The results were visualized utilizing enhanced chemiluminescence reagents (BB-3501, Ameshame, Little Chalfont, UK). Images were acquired through Bio-Rad image analysis system (Bio-Rad Laboratories, Hercules, CA), followed by analysis using Quantity One v4.6.2 software. The relative protein level was described as the ratio of gray value of protein to be tested to that of GAPDH [22 , 23 (link)].
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