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7 protocols using ab129089

1

Western Blot Analysis of Liver and Macrophage Proteins

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Mouse liver tissues or macrophages were lysed using RIPA lysis buffer (beyotime) to obtain the protein sample. After the protein concentration was measured using a BCA kit (beyotime), certain volume of protein was mixed with loading buffer (beyotime) for boiling water bath for 3 minutes for degeneration. The proteins were subjected to electrophoresis at 80 V for 30 minutes and then at 120 V for 1–2 hours. Membrane was transferred at a current of 300 mA for 60 minutes and then washed in washing buffer for 1–2 minutes before blocking at room temperature for 1 hou or at 4℃ for overnight. The membranes were incubated with one of the primary antibodies against GAPDH (ab181602, 1:10 000), ApoM (ab85695, 1:1000), FXR1 (ab129089, 1:1000), ABCA1 (ab18180, 1:200), ABCG1 (ab52617, 1:1000) and SR‐BI (ab217318, 1:2000) (Abcam) at shaking bed at room temperature for 1 hour before washing for 3 × 10 minutes. After that, the membranes were incubated with horseradish peroxidase–labelled goat anti‐rabbit IgG (1:5000; Beijing ComWin Biotech Co., Ltd) for 1 hour and washed for 3 × 10 minutes. The membranes were observed under a chemiluminescence imaging system (Bio‐rad) after development solution was added.
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2

Immunohistochemical Analysis of Amyloid-FXR1 Colocalization

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Conformation-dependent amyloid-specific OC antibodies (AB2286, Merck, Burlington, MA, USA) were used at a dilution of 1:400, and the primary antibodies anti-FXR1 (ab129089, Abcam, Cambridge, UK) were used at a dilution of 1:600. Cryosections were pretreated as described earlier [5 (link)] and incubated with primary antibodies at +4 °C, overnight. After washing to remove unbound antibodies, the sections were incubated with anti-rabbit secondary antibodies conjugated with Alexa Fluor 647 (ab150075, Abcam, Cambridge, UK) at a dilution of 1:1000 for an hour at +37 °C. To visualize nuclei, the slides were counterstained with DAPI. Histological staining of amyloids was performed using 0.1 mg/mL CR solution in 50% ethanol or using 1% Thioflavin S solution in 70% ethanol. Visualization of the results of immunohistochemical analysis and staining with amyloid-specific dyes was performed with a TCS SP5 confocal microscope (Leica Microsystems, Wetzlar, Germany) and “Leica Application Suite X 3.3.0.16799” software. To quantify the colocalization of FXR1 with CR red or Thioflavin S, Pearson’s correlation coefficient was calculated using the coloc2 plugin of FIJI software (http://fiji.sc/Fiji, accessed on 23 February 2020). At least 100 zones on preparations of each animal studied were analyzed to assess the colocalization of CR or Thioflavin S with the FXR1 protein.
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3

Comprehensive Analysis of Hepatic Transporters

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HB (collection in Sichuan, 20042901), ZZ (collection in Fujian, 210303), DH (collection in Gansu, 20201211), and MX (collection in Jiangsu, 21032501) were obtained from Simcare Ltd. Primary antibodies against ZO-1 (21773-1-AP, 1:1000), occludin (13409-1-AP, 1:1000), claudin-1 (13050-1-AP, 1:1000), and the second antibody of beta-actin (20536-1-AP, 1:10000) were purchased from Proteintech Group Inc. Primary antibodies against NTCP (ab131084, 1:1000), BSEP (ab155421, 1:1000), CYP7A1 (ab234982, 1:1000), MRP2 (ab172630, 1:1000), and FXR1 (ab129089, 1:1000) were obtained from Abcam Inc. ANIT (N106389), UDCA(U110695), and olive oil (O108685) were purchased from the Aladdin Chemical Reagent Co. Dimethyl sulfoxide (DMSO) was purchased from Sigma-Aldrich (reference D4540) (St-Louis, MO, USA). The TRIzol total RNA extraction kit was obtained from Life Technologies.
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4

Extraction and Characterization of Native FXR1 Protein

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The extraction of the native FXR1 protein was performed as a two-step procedure. First, anti-FXR1 antibodies ab129089 (Abcam, Cambridge, UK) were coupled to SureBeads magnetic beads coated with protein A (Bio-Rad, Hercules, CA, USA). For this, beads were prewashed with a binding buffer (BB) (PBS, 0.02% Tween-2) and then resuspended in 500 μL of BB with the addition of Complete Protease Inhibitor Cocktail (Roche, Mannheim, Germany). An amount of 5 μL of anti-FXR1 antibodies was added to the beads (final concentration of antibodies, 6.43 μg/mL), and the mixture was incubated at room temperature for 1 h under slow overhead rotation. After the incubation, the magnetic beads were washed with the BB. Next, brain lysates were incubated with the prepared magnetic beads overnight at +4 °C under slow overhead rotation. Then, the beads were washed with BB to remove unbound proteins, resuspended in the elution buffer (125 mM Glycine, 0.1% Triton-X100, pH 2.1), and incubated for 10 min to ensure protein elution. Then, an aliquot of 1.5 M Tris pH 8.8 was added to the eluate to restore the pH. Samples were concentrated by centrifugation at 436,000× g for 2 h at +4 °C. The resulting precipitate was dissolved in 10 μL of cold sterile water. Fibril formation was verified by TEM and CR staining.
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5

Western Blot Analysis of Protein Targets

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Western blot analysis was employed as previously described (22 (link)). Anti-SHP (sc-271511; Santa Cruz Biotechnology), FXR (ab129089; Abcam), PD-L1 (13684S; CST), NSMase2 (ab68735; Abcam), RAB27A (ab55667; CST, USA), and β-Actin (ab8226; Abcam) were used according to concentration recommended by the manufacturers.
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6

Brain Protein Fractionation and Analysis

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Protein extraction from brains was performed as follows: 100 mg of brain homogenate was resuspended in 500 µL of PBS buffer with protease inhibitors Complete Mini Tablets (Roche, Mannheim, Germany). Then, SDS solution was added to the samples to the final concentration of 1% and incubated for 15 min at room temperature. Cell debris was removed by low-speed centrifugation (805× g, 5 min). Then, the lysate was ultracentrifuged for 1 h 45 min (258,500× g, +18 °C) and the insoluble fraction was collected. The supernatant was loaded into the Amicon Ultra 100 K filter unit (Merck Millipore, Burlington, MA, USA) and further divided by centrifugation into two fractions: less than 100 kDa (monomeric fraction) and higher than 100 kDa (oligomeric fraction). The volume of all three fractions was equalized. The FXR1 protein was detected with the primary anti-FXR1 antibody ab129089 (Abcam, Cambridge, UK) and secondary Goat Anti-Rabbit IgG H&L conjugated with HRP (ab205718) (Abcam, Cambridge, UK). Chemiluminescent detection was performed using the Amersham ECL Prime Western Blotting Detection Reagent (GE Healthcare, Chicago, IL, USA). The intensity of the protein bands was calculated using the program Image Lab (Bio-Rad, Hercules, CA, USA).
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7

Immunofluorescence Analysis of Intestinal KLF4 and HES1

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Colon tissue sections were incubated in primary antibodies against Krüppel-like factor 4 (KLF4) (1:50; Thermo Fisher Scientific; 11880-1-AP), HES family basic helix-loop-helix transcription factor 1 (HES1) (1:100; Thermo Fisher Scientific; PA5-28802), and FXR (1:300; Abcam; ab129089) overnight at 4°C. Samples were incubated with secondary antibodies, CoraLite488-conjugated goat anti-rabbit IgG (H+L) (1:500; Proteintech; SA00013-2), for 1 h at 26°C and then incubated with 4′,6-diamidino-2-phenylindole (DAPI) for 3 min. The slides were examined using a BX53F microscope (Olympus) to analyze the expression of KLF4 and HES1.
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