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13 protocols using n cad

1

Oroxylin A Anti-inflammatory Signaling

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Oroxylin A was bought from Novartis Pharmaceuticals (Basel, Switzerland) and dissolved in dimethyl sulfoxide (DMSO) as a stock solution. Primary antibodies against CDK2, CyclinE, p27, p-p65, p65, and COX-2 were obtained from Cell Signaling (Beverly, MA, USA). Primary antibodies against E-cad, N-cad, Vimentin, p-IκB, IκB, and GAPDH were obtained from Cell Signaling Technology (Danvers, MA). Secondary antibodies conjugated with horseradish peroxidase were obtained from Santa Cruz Biotechnology. All other reagents were purchased from Sigma-Aldrich (Louis, MO, USA).
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2

Investigating TGF-beta Signaling Pathways

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Antibodies against phospho-Smad2 (p-Smad2), p-Smad3, Smad2, Smad3, ART, p-AKT, p-p38, p38, p-Erk1/2, Erk1/2, ECAD, NCAD, and TAZ were purchased from Cell Signaling Technology (Beverly, MA, USA). Anti-TRPV4 primary antibody was purchased from Alomone Labs (Jerusalem, Israel). Antibodies against β-Actin and GAPDH were purchased from Santa Cruz Biotechnology (Dallas, TX, USA). Anti-α-SMA, GSK2193874 (GSK219), GSK1016790A (GSK101), SD208, and A23187 (A23) were purchased from Sigma-Aldrich (St. Louis, MO, USA). Mouse and rabbit anti-goat IgG were purchased from Jackson ImmunoResearch (West Grove, PA, USA). TGFβ1 was purchased from R&D Systems (Minneapolis, MN, USA). Alexa Fluor 488/594 conjugated IgG and Prolong diamond DAPI were purchased from Thermo Fisher Scientific (Waltham, MA, USA). FLIPR Calcium 5 assay kit was purchased from Molecular devices (Sunnyvale, CA, USA). Easy coat hydrogels of various degrees of stiffnesses (0.5, 1, 8, 12, 25, and 50 kPa) were purchased from Matrigen Life Technologies (Brea, CA, USA). Catalog number of all reagents and antibodies are included in the supplementary table 1.
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3

Western Blot Analysis of Cell Lysates

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The cells were collected and lysed with cell lysis buffer for the Western blot analysis. The proteins in the lysates (20 μg per lane) were separated on 8% or 10% sodium dodecyl sulfate–polyacrylamide gel electrophoresis and transferred onto polyvinylidene fluoride membranes. After blocking with 5% nonfat milk in Tris-buffered saline with Tween 20 (TBST), the primary antibodies for FAP (R&D), FGF9 (R&D), E-cad (Cell Signaling Technology, MA, USA), N-cad (Cell Signaling Technology), Snail (Cell Signaling Technology), and GAPDH (Beyotime, Shanghai, China) were used overnight at 4 °C. The membranes were then washed with TBST three times and incubated with appropriate secondary antibodies. The protein bands were visualized using the enhanced chemiluminescence reagents (Millipore, MA, USA).
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4

Western Blot Analysis of EMT Markers

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Cells and human RCC tissues were lysed in radioimmunoprecipitation assay (RIPA) buffer (Beyotime, Beijing, China), supplemented with protease inhibitors (Roche, Shanghai, China) and the serine protease inhibitor phenylmethylsulfonyl fluoride (PMSF; Roche), at 4°C for 30min. The cell supernatants were extracted after centrifugation for 15 min at 14,000 rpm, then the concentration of the protein was determined using a BCA Protein Quantification kit (Beyotime Institute of Biotechnology). Proteins from tissues and cells were separated using 10% SDS-PAGE, transferred onto PVDF membranes (Millipore, Billerica, USA), blocked for 2h with 5% nonfat milk at room temperature, and incubated with primary antibodies at 4°C overnight. After that, the membranes were washed three times with TBST and incubated with a horseradish peroxidase-conjugated secondary antibody for 2 h at room temperature. Blots were detected using a Bio-Rad Bioimaging system (Bio-Rad, CA, USA), and antibodies against β-actin served as a negative control. Rabbit monoclonal antibodies (1:1000) against TGF-β1, E-cad, N-cad, Vimentin and MMP-9 (Cell Signaling Technology, USA) were used in Western blot analysis according to the manufacturer’s instructions.
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5

Protein Expression and Signaling Analysis

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Protein extraction and Western blots were conducted and analyzed as previously described [8 (link)] with the antibodies against the following: PTEN, N-Cad, and E-Cad (1:1000; Cell Signaling Technology, MA, USA); Akt and phosphorylated-Akt (phosphorylated on S473), Caspase 3 (1:1000; Abcam, CA, USA); P70S6K and phosphorylated-P70S6K (phosphorylated on S371), mTOR and phosphorylated-mTOR (phosphorylated on S2998; 1:1000; Bioworld, Jiangsu, China); CD63, TSG-101, and Flotillin-1 (1:500; Abcam, CA, USA), and human β-actin (1:5000; Transgene, Beijing, China). The blots were quantified by density relative to β-actin, while the phosphorylation of Akt, mTOR, and P70S6K was determined by density relative to total Akt, mTOR, and P70S6K, respectively. All experiments were performed in triplicate.
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6

Western Blot Analysis of Differentiated THP1 Cells

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The differentiated THP1 cells were lysed with 1 X RIPA buffer supplemented with protease and phosphatase inhibitor cocktail (Roche Applied Science, Indianapolis, IN) and stored in aliquots at -20°C until use. Twenty micrograms of cell lysates were denatured by boiling, and separated by SDS-PAGE. The separated proteins were then transferred to a nitrocellulose membrane (BioRad). The membranes were blocked using 5% non-fat dry milk for 1 h at room temperature and probed with antibodies overnight. After incubated with IgG horseradish peroxidase-conjugated secondary antibodies (Cell Signaling, Beverly, MA) for 2 h at room temperature, the immunoblots were developed using the enhanced chemiluminescence (ECL) reagent (Cell Signaling, Beverly, MA) and visualized using a FluroChemQ processor (Proteinsimple, Santa Clara, CA). The antibodies used in this study include CD206, ERK, pERK. AKT, pAKT, foxo1, Glut1, N-cad and skp2, which were obtained from Cell Signaling Technologies.
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7

Immunohistochemical Analysis of FAP, Cell Markers in Glioma and Xenograft Tumors

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IHC staining was performed using a Leica BOND III automated system. Anti‐FAP antibody (ab207178, 1:400) was used for the IHC staining of tumor tissues from patients with glioma. Immunostained slides of TMA sections were scanned using a Leica Aperio AT2 scanner (at 400× magnification) and analyzed using a Leica Aperio ImageScope v12.3. The automated algorithm scored the staining of each tissue core as negative (0), weak (1+), moderate (2+), or strong (3+) according to the scoring criteria threshold. The algorithms also determined the percentage of positive staining. Then, the H‐score of each case was established using the formula H‐score = 1 × (percentage of 1+ cores) + 2 × (percentage of 2+ cores) + 3 × (percentage of 3+ cores). Thus, the H‐score ranged from 0 to 300.13 FAP (ab207178), Ki‐67 (ab15580), E‐cad (Cell Signaling Technology, #14472), and N‐cad (Cell Signaling Technology, #13116) antibodies were used for the IHC staining of subcutaneous tumors from BALB/c athymic nude mice.
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8

Western Blot Profiling of EMT Markers

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The protocol used for western blotting is described elsewhere.22 (link) Total cellular protein was extracted in lysis buffer by radioimmunoprecipitation assay. The protein concentration was determined by using the bicinchoninic acid kit (Biyuntian, Jiangsu, China). Load the same amount of protein onto 10% SDS-polyacrylamide gel electrophoresis gel. After electrophoresis, the protein was blotted onto a polyvinylidene fluoride membrane. The membrane was blocked in 5% skim milk and incubated with the primary antibody overnight at 4 °C, and then treated with secondary antibody at 37 °C for 2 h. The primary rabbit anti-human antibodies used were as follows: ECAD (Cell Signaling Technology), NCAD (Cell Signaling Technology), vimentin (Proteintech Group), MMP1 (Cell Signaling Technology), MMP3 (Abcam), IGFBP3 (Abcam), β-catenin (Cell Signaling Technology), Akt (Cell Signaling Technology), phospho-Akt (Cell Signaling Technology), GSK-3β (Cell Signaling Technology), phospho-GSK-3β (Cell Signaling Technology), TBP (Proteintech Group) and β-actin (Cell Signaling Technology).
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9

Western Blot Analysis of SMAD Signaling

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RIPA (Beyotime), protease inhibitors and phosphatase inhibitors were used for lysing cells on ice for 30 min. Total protein was extracted by centrifugation (12,000 rpm), and the Enhanced BCA Protein Assay Kit (Beyotime) was used to measure the protein concentration according to its protocol. Ten percent SDS-PAGE was used for electrophoresis to isolate target proteins. The proteins were then blotted onto PVDF membrane strips (Sigma-Aldrich, USA). Primary antibodies were listed as following: SMAD4 (1:1000, Cell Signaling Technology, USA), SMAD2 (1:1000, Cell Signaling Technology), SMAD3 (1:1000, Cell Signaling Technology), p-SMAD2 (1:1000, Ser465/467, Cell Signaling Technology), p-SMAD3 (1:1000, Ser423/425, Cell Signaling Technology), E-CAD (1:1000, Cell Signaling Technology), N-CAD (1:1000, Cell Signaling Technology), VIM (1:1000, Cell Signaling Technology), and GAPDH (1:10,000, Abcam, USA). GAPDH was taken as a loading control. Finally, all PVDF strips were incubated in a secondary antibody solution (1:5000, HRP-conjugated anti-rabbit IgG) (Invitrogen, USA). Bound antibodies were detected using BeyoECL plus (Beyotime) by a Fusion equipment (Vilber Lourmat, Paris, France).
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10

Immunohistochemical Analysis of Xenograft Tissues

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Xenograft tissues were fixed in formalin and then dehydrated and embedded in paraffin. Then, the tissue sections were incubated with an antibody against PSAT1 (no. 67619‐1‐Ig, Proteintech), Ki67 (no. 9449, Cell Signaling), E‐cad (no. 14472, Cell Signaling), N‐cad (no. 13116, Cell Signaling), or vimentin (no. 5741, Cell Signaling) overnight. After washing, the sections were incubated with a secondary antibody coupled with horseradish peroxidase. IHC images were observed under a microscope (Olympus).
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