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40 protocols using 0.45 μm polyvinylidene fluoride membrane

1

Immunoblotting Procedure Modifications

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Immunoblotting procedures were modified from Lee et al. [13 (link), 15 (link)] with a few modifications. Aliquots containing 20 μg of sample homogenates were heated with denaturing buffer at 60°C for 15 min. The samples were separated by electrophoresis on 10% sodium dodecyl sulfate polyacrylamide gels. The separated proteins were transferred to 0.45 μm polyvinylidene fluoride membranes (Millipore, Bedford, MA, USA) using a tank transfer system (Mini protean 3; Bio-Rad, Hercules, CA, USA). The membranes were pre-incubated for 2 h in PBS containing 0.2% (v/v) Tween 20 and 5% (w/v) nonfat dried milk to minimize nonspecific binding. Next, the blots were incubated at 4°C overnight with antibodies (Table 2). The membranes were then incubated at room temperature for 1 h with secondary antibodies (Table 2). Blots were developed using ImmobilonTW Western (Millipore). Signals were obtained using the Chemidoc XRS+ image system (Bio-Rad), and then the data were analyzed with Image Lab software (version 3.0; Bio-Rad). The results were converted to numerical values to compare the relative protein abundance of the immunoreactive bands.
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2

Western Blot Analysis of Protein Targets

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The western blot analysis procedure was reported previously. In brief, the cells were lysed and the proteins extracted with RIPA buffer (#P0013, Beyotime, China). The protein content was quantified by the BCA method. Proteins were boiled and subjected to sodium dodecyl sulfate‒polyacrylamide gel electrophoresis (SDS‒PAGE) separation. The proteins were transferred onto 0.45 μm polyvinylidene fluoride membranes (Millipore, USA) and incubated with the corresponding primary antibodies and secondary antibodies. Protein signals were visualized using ECL detection reagent (Thermo Fisher Scientific, USA) and ChemiDoc XRS (Bio-Rad Laboratories, USA). The primary antibodies used were as follows: YTHDC1 (#29441-1-AP, Proteintech, 1:500 dilution), ANXA1 (#55018-1-AP, Proteintech, 1:2000 dilution), YY1 (#66281-1-Ig, Proteintech, 1:1000 dilution), HDAC2 (#12922-3-AP, Proteintech, 1:1000 dilution), and beta actin (#66009-1-Ig, Proteintech, 1:5000 dilution).
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3

Protein Separation and Western Blot Analysis

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Purified protein sample was analysed by 4 ~ 20% linear gradient polyacrylamide gel at reducing and non-reducing (without 2-mercaptoethanol) conditions. Native gel was run in 3 ~ 15% linear gradient polyacrylamide without SDS and 2-mercaptoethanol. Gels were silver stained with 0.1% AgNO3.
The proteins separated by 4 ~ 20% SDS-PAGE at reducing and non-reducing conditions were transferred to 0.45-μm polyvinylidene fluoride membranes (Millipore, Billerica, MA) at 400 mA for 2 ~ 4 hr at 4°C. Western blotting analysis was performed with monoclonal antibodies anti-α1 (ab2862, Abcam, Cambridge), anti-α2 (ab2864, Abcam, Cambridge) and anti-β (VD2(1)B12, DHSB, Iowa City, Iowa).
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4

Immunoblot Analysis of Recombinant PvRALP1 Proteins

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The parasite proteins were extracted in reducing sample buffer for SDS-PAGE. Five micrograms of recombinant PvRALP1-Ecto or PvRALP1-Tr protein were loaded into each well and separated by SDS-PAGE under reducing conditions. The separated proteins were transferred to 0.45 μm polyvinylidene fluoride membranes (Millipore, Billerica, MA, USA) in a semidry transfer buffer (50 mM Tris, 190 mM glycine, 3.5 mM SDS, 20% methanol) at 400 mA for 40 min using a semidry blotting system (ATTO Corp., Tokyo, Japan). After blocking with 5% skim milk in phosphate-buffered saline containing 0.2% Tween 20 (PBS-T), the membranes were probed with mouse anti-PvRALP1-Ecto and anti-PvRALP1-Tr sera, rabbit anti-PvRALP1-Tr serum, anti-GST monoclonal antibody (Novagen, Madison, WI, USA), anti-penta-His monoclonal antibody (Qiagen), preimmune mouse serum, pooled sera from P. vivax malaria patients or noninfected individuals, all diluted 1:200 in PBS-T. IRDye goat anti-mouse, IRDye goat anti-rabbit, or IRDye goat anti-human sera (LI-COR Biosciences, Lincoln, NE, USA) were used to detect recombinant proteins according to the manufacturer’s instructions. Data were scanned with an Odyssey infrared imaging system (LI-COR Biosciences) and analysed with Odyssey software (LI-COR Biosciences).
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5

Western Blot Analysis of SREBP1, FASN, and ACTB

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Cells were lysed using radioimmunoprecipitation buffer (Beyotime, Shanghai, China). Total protein (20 μg) was separated by 8% sodium dodecyl sulfate-polyacrylamide gel electrophoresis and transferred onto 0.45 μm polyvinylidene fluoride membranes (Millipore, Billerica, USA) using a Mini-Protean System (Bio-Rad, Hercules, USA). Membranes were incubated with primary antibody (1:500 dilution, catalog no. ABS1508, anti-SREBP1 antibody from Sigma-Aldrich; 1:500 dilution, catalog no. 3189S, anti-FASN antibody from Cell Signaling, Danvers, USA; 1:1 200 dilution, catalog no. AA128, anti-ACTB antibody from Beyotime) overnight at 4°C, then incubated with horseradish peroxidase-conjugated anti-rabbit antibody from Beyotime (1:8 000 dilution, catalog no. A0208) or anti-mouse antibody from Beyotime (1:12,000 dilution, catalog no. A0216) for 2 h at 37°C. Enhanced chemiluminescence (Beyotime) was added to the membranes, which were detected using an Odyssey Fc Imaging System (Li-Cor, Lincoln, USA) [22 (link)].
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6

Western Blot Analysis of Bone and Cell Lysates

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After cells or bone samples had been lysed, the protein concentrations were measured using a bicinchoninic acid protein assay kit. The lysates were centrifuged and denatured for 5 min at 94°C. Each protein sample underwent 10% sodium dodecyl sulfate–polyacrylamide gel electrophoresis and was transferred onto 0.45-μm polyvinylidene fluoride membranes (Millipore, Bedford, MA, USA). The membranes were blocked with 5% non-fat dry milk in Tris-buffered saline with Tween 20 (TBST) for 1 h, and probed with primary antibodies against RANKL (1:1000, R&D Systems), bcl-2 (1:1000, Abcam), WNT5A (1:1000, Abcam), or β-actin (1:5000, Abcam) at 4°C overnight. The membranes were then washed three times with TBST and incubated for 1 h with horseradish peroxidase–conjugated secondary antibodies (1:5000, Abcam). The proteins were visualized using an enhanced chemiluminescence detection system as recommended by the manufacturer.
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7

Detecting EMT Markers in Linc01433 Overexpressing Cells

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Cells stably overexpressing linc01433 were lysed by RIPA buffer with a protease inhibitor cocktail (Roche). A protein assay kit (Bio‐Rad) was used to determine the concentration of protein. Protein lysates weighing 50 μg were electrophoresed on 12% sodium dodecyl sulfate‐polyacrylamide gel electrophoresis, transferred onto 0.45‐μm polyvinylidene fluoride membranes (Millipore, Billerica, MA, USA), and then incubated with an Epithelial–Mesenchymal Transition Antibody Sampler Kit (Cell Signaling, Danvers, MA, USA). Pierce ECL Western Blotting Substrate (Thermo Scientific) was used to detect the bands and quantify the intensity. β‐Actin antibody was used as a control.
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8

Western Blot Analysis of Protein Targets

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Cells were lysed in radioimmunoprecipitation assay buffer containing protease inhibitors and were quantified using a bicinchoninic acid kit (Thermo Fisher Scientific, Rockford, IL, USA). Equal amounts of protein were separated by sodium dodecyl sulfate–polyacrylamide gel electrophoresis and then transferred to 0.45-μm polyvinylidene fluoride membranes (Millipore, Bedford, MA, USA). The membranes were blocked using Tris-buffered saline (TBS) and 0.1% Tween 20 (TBST) containing 5% bovine serum albumin for 2 h and then incubated with primary antibodies (anti-p53, -USP9X, and -GAPDH, diluted 1:1000 in TBST) overnight. After washing three times with TBST, the membranes were incubated with the appropriate secondary antibodies conjugated to horseradish peroxidase for 1 h at room temperature. Bands were visualized using enhanced chemiluminescence in the western blot detection system. All antibodies were purchased from Abcam (Cambridge, MA, USA).
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9

Quantifying Small Intestinal Proteins

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Small intestinal mucosa were flushed with saline and then scratched. Total protein was extracted by RIPA lysis buffer (KeyGEN, China) with protease and phosphatase inhibitor cocktail (KeyGEN, China) and was quantified using bicinchoninic acid protein assay kit (Beyotime, China). Equivalent amount of small intestinal mucosal protein were loaded on 10% sodium dodecyl sulfate-polyacrylamide gel electrophoresis gels (Bio-Rad, United States) and separated by electrophoresis. Then, proteins were transferred onto 0.45 μm polyvinylidene fluoride membranes (Millipore, Ireland). After being blocked in 5 % skim milk powder (Beyotime, China) for 2 h, the membranes were incubated with primary antibodies to Smpd3 (Abcam, United Kingdom) and Sptlc2 (Invitrogen, United States) overnight, followed by incubation in horseradish peroxidase-conjugated secondary antibodies (Proteintech, China) for 60 min. The protein bands were visualized by ECL solution (Millipore, United States) and their density was assessed with LI-COR Odyssey Imager (LI-COR Biosciences, United States).
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10

Western Blot Analysis of Amyloid-beta Pathways

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Primary neurons were seeded in poly-D-lysine-coated 6-well plates at a density of 8×105 cells/well. At DIV7, cells were treated with either Aβ42 species alone or together with inhibitors, as indicated in each experiment. After 24 h, the cells were harvested and lysed using radioimmunoprecipitation assay buffer (RIPA buffer) in the presence of protease and phosphatase inhibitor cocktails (Transgene, Beijing, China). The protein concentration was determined using a BCA protein assay kit (Beyotime). Protein samples (10-15 μg) were separated by SDS-PAGE and transferred to 0.45-μm polyvinylidene fluoride membranes (Millipore, Massachusetts, United States). Following transfer, the membranes were blocked with 5% BSA-TBST or 5% milk-TBST at room temperature for 1 h. The membranes were probed with primary antibodies and HRP-conjugated secondary antibodies. Target proteins were further detected using ECL chemiluminescent HRP substrate (Millipore) in a Bio-Rad Chemidoc imaging system (California, United States). All blots were analyzed using the ImageJ software (version 1.50i) to determine the optical densities. Data were normalized to the corresponding β-actin bands. The primary antibodies used in the study can be found in the Supplementary Information (Table S1).
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