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5 protocols using ab36938

1

Protein Extraction and Western Blot Analysis

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Total protein in tissues and cells was extracted with RIPA lysis buffer (R0010, Solarbio) containing PMSF. The cells were incubated for 30 min on ice, centrifuged at 12000 r/min, and 4°C for 10 min, and the supernatant was taken. The BCA kit (23225, Pierce) was employed to determine protein concentration of each sample. A 10% SDS-PAGE (P0012A, Beyotime Institute of Biotechnology, Shanghai, China) was adopted to dissolve proteins, which were transferred to a PVDF membrane (ISEQ00010, Millipore, Billerica, MA, USA) by wet transfer. The PVDF membrane was blocked with TBST buffer containing 5% skimmed milk powder for 2 h. The blots were probed with the primary antibody to rabbit KDM6A (1 : 1000, ab36938, Abcam, UK), NOTCH2 (1 : 1000, Ak098372, Abcam, UK), Abcb1a (1 : 1000, ab3373, Abcam, UK), IL-1β (1 : 1000, S328, NIBSC, UK), IL-6 (1 : 1000, Tyr705, Abcam, UK), IL-8 (1 : 1000, S333, Abcam, UK), TNF-α (1 : 1000, C432, PA, USA), Bcl-2 (1 : 1000, ab32124, Abcam, UK), Bax (1 : 1000, 6A7, Abcam, UK), caspase-3 (1 : 1000, H-277, Abcam, UK), and β-actin (1 : 1000, AC15, Abcam, UK). HRP-labeled goat anti-rabbit IgG antibody (Beijing Zhongshan Biotechnology Co., Ltd., Beijing, China, 1 : 5000) was then incubated with cells. The blots were developed with the ECL and quantified with Quantity One v4.6.2 software.
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2

Detecting Protein Expression Levels

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Cell lysates were prepared and processed as described [16 (link)]. Antibodies were used at the following dilutions: β-actin (MAB1501, 1:1,000; Chemicon), KDM6A (ab36938, 3μg/mL; Abcam), p21CIP1 (ab109520, 1:750 and ab109199, 1:1,000; Abcam), FLAG (F-3165, 1:1,000; Sigma) and HRP-conjugated secondary anti-rabbit (1:10,000; Amersham) and anti-mouse (1:10,000; Amersham). Antigen/antibody complexes were visualized by enhanced chemiluminescence (PerkinElmer Life Sciences) and electronically acquired with a Kodak 4000R Image Station (Kodak) equipped with Carestream Molecular Imaging Software.
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3

Western Blot Analysis of Epigenetic Regulators

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Cells were lysed by radioimmunoprecipitation assay lysis buffer in the presence of protease inhibitor cocktail and phosphatase inhibitor cocktail 2 and 3 (P8340, P5726, and P0044, Sigma-Aldrich). Cell lysates were electrophoresed on 8%–12% SDS-polyacrylamide gels and then transferred to nitrocellulose membranes. Antibodies were against JMJD3, Oct4, UTX and H3K27me3 (ab38113, ab19857, ab36938, and ab6002; Abcam, Inc. Cambridge, MA), aldehyde dehydrogenase (ALDH), β-actin (sc-166362, sc-4778; Santa Cruz Biotechnology, Inc., Santa Cruz, CA) and PHF20 (D96F6, Cell Signaling Technology, Inc., Danvers, MA). The membranes were subsequently incubated with horseradish peroxidase-conjugated secondary antibodies. Bound antibodies were detected by enhanced chemiluminescence reagent (Millipore, Billerica, MA).
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4

GSK-J4 Modulates Histone Methylation

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Whole-cell lysates of GSK-J4-treated cells were extracted with 300 μL of RIPA buffer (50 mM Tris, 150 mM NaCl, 1% NP40, 0.5% sodium deoxycholate, and 0.1% sodium dodecyl sulfate [SDS]), and subjected to western blot analysis. The membranes were incubated with polyclonal antibodies against UTX (ab36938, 1:2000, Abcam, Cambridge, MA, USA), Tri-methylation of histone H3 lysine 27 (H3K27me3) (A-4039, 1:2000, EpiGentek, Farmingdale, New York, USA), CDK4 (#12790, 1:1000, cell signaling, Danvers, Massachusetts, USA), Cyclin D1 (#2978, 1:1000, cell signaling, Danvers, Massachusetts, USA), E-cadherin (GTX124178, 1:5000, Genetex, Irvine, CA, USA), N-cadherin (sc-7939, 1:500, Santa Cruz Biotechnology, Santa Cruz, California, USA), Twist1 (#46702S, 1:500, cell signaling, Danvers, Massachusetts, USA), and β-actin (A5441, 1:10000, Sigma-Aldrich, St. Louis, Missouri, USA). Horseradish peroxidase-conjugated anti-rabbit secondary antibody was added to detect primary antibodies, and blots were developed with a chemiluminescence system (Pierce). All resolved protein bands were developed using the Western Lightning Chemiluminescence Reagent Plus system (Amersham Biosciences). All the experiments were repeated at least three times with similar results.
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5

Chromatin Immunoprecipitation (ChIP) Protocol

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For ChIP analysis, cells were fixed with 1% formaldehyde for 15 min at room temperature, and then quenched with 2.5 M glycine. Subsequently, the cells were lysed on ice for 10 min in SDS buffer containing protease inhibitors, and then sonicated with Sonics Vibra CellTM (Sonics & Materials Inc., CT, USA; 7 min: 10 s pulse, 10 s interval) on ice. The fragmented chromatin samples were centrifuged at 8000 ×g at 4 °C for 5 min and the supernatant was collected. The samples were pre-cleared, and then incubated overnight at 4 °C with the appropriate antibodies and protein-coated A/G agarose beads (Santa Cruz) with gentle shaking. The immunoprecipitated eluates were reverse cross-linked and recovered through DNA purification for PCR. Anti-H3K4me3 (ab1012; Abcam), anti-H3K9ac (ab12179; Abcam), anti-H3K27me3 (ab6002; Abcam), anti-EZH2 (#5246S; Cell Signaling), anti-SUZ12 (#3737; Cell Signaling), anti-EED (ab96801; Abcam), anti-UTX (ab36938; Abcam), anti-JMJD3 (ab169197; Abcam), and non-immune mouse IgG (sc2025; Santa Cruz) antibodies were used. ChIP-PCR primers are listed in Table 2.
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