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7 protocols using decitabine

1

Optimization of Inhibitor Concentrations for FGSCs

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These inhibitors (C646, GSK343 and decitabine; MedChemExpress, Shanghai, China) were initially dissolved in 10 mM DMSO to a range of concentrations (C646: 1, 2, 4, 6, 8, and 10 μM; GSK343: 1, 2, 4, 6, 8, and 10 μM; decitabine: 1, 2, 4, 6, 8, and 10 μM) with FGSC medium. The FGSCs were cultured to a density of 40% on a 48-well plate and treated with inhibitor for 24 h. Finally, the appropriate concentrations of different inhibitors (C646: 4 μM; GSK343: 4 μM; decitabine: 8 μM) were determined according to the results of CCK8.
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2

Cytokine and Inhibitor Evaluation in Cancer Cells

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Recombinant Human TNF-α (Cat. No. 300-01A), IFN-γ (Cat. No. 300-02), and insulin growth factor (IGF; Cat. No. 100-11) were purchased from PeproTech (Cranbury, NJ, USA). Sodium butyrate (Cat. No. S1200) and cisplatin (Cat. No. C2210000) were purchased from Sigma-Aldrich (Saint Louis, MO, USA). The inhibitors CUCD-101 (Cat. No. HY-10223), decitabine (HY-A0004), santacruzmate A (HY-N0931), zebularine (HY-13420), olaparib (HY-10162), alpelisib (HY-15244), and MK-2206 (HY-108232) were all purchased from MedChemExpress (Sollentuna, Sweden). Fulvestrant (ICI 182,780; Cat. No. 1047) was obtained from Tocris Bioscience (Bristol, UK). A medium containing 0.5% DMSO was used as a vehicle-only control for the experiments.
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3

Eμ-Myc Lymphoma Cell Culture and Decitabine Treatment

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The cell culture adapted Eμ-Myc lymphoma cell clone 152M was maintained in RPMI 1640 medium (Sigma-Aldrich, Taufkirchen, Germany) supplemented with 10% (v/v) fetal calf serum (FCS), 50 µM β-mercaptoethanol (Carl Roth, Darmstadt, Germany), 10 mM HEPES and 100 units/mL penicillin and 0.1 mg/mL streptomycin (both Sigma). Cells were cultured under humidified atmosphere at 5% CO2 and 37 °C. For inhibition of DNA methyltransferases, cells were treated with 0.1, 0.5, and 1.0 µM Decitabine (MedChemExpress, Monomouth Junction, NJ, USA) for 48 h. Cell viability was monitored by Trypan Blue (Sigma-Aldrich, Taufkirchen, Germany) staining.
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4

Detailed Reagent Preparation Protocol

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Azacytidine (CAS No. 320-67-2) and decitabine (CAS No. 2353-33-5) were purchased from MedChemExpress. 5-Ad-IAA (CAS No. 2244426-40-0) was a gift from Dr. Xiangbing Qi’s lab at NIBS, Beijing. All of these chemicals were prepared as 10 mM stocks in DMSO (CAS No. 67-68-5) purchased from Sigma-Aldrich and further diluted in DMSO to the desirable concentrations. Polybrene and PEI were purchased from Yeasen. Puromycin and blasticidin were purchased from InvivoGene. Hygromycin B was purchased from Sigma.
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5

Endothelial Cell HDAC Modulation by Romidepsin

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Primary HAEC were purchased from the American Type Culture Collection (Catalog No. PCS-100-011, Lot no. 63233442, Manassas, VA) and maintained in Endothelial Growth Medium-2 (Lonza) supplemented with 10% FBS (GIBCO). HDAC inhibitor Romidepsin (HY-15149), RGFP966 (HY-13909) and PCI-34051 (HY-15224), HDAC activator ITSA-1 (HY-100508) and DNMT inhibitor Decitabine (5-Aza-2'-deoxycytidine, DCA, HY-A0004) were products of MedChemExpress. Unless otherwise indicated, HAEC up to passage 10 without serum starvation were pretreated with Romidepsin (40 nM) for 1 h and then stimulated with 0.1 ng/mL TNFα (R&D Systems) for 2 h for mRNA measurement, or for 4 h for Western blot and flow cytometry analyses.
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6

Decitabine-Mediated Epigenetic Regulation

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Decitabine (Sigma-Aldrich, St. Louis, MO) was dissolved in double-distilled water to a 5 mmol/L stock concentration, aliquoted for single use, and stored at −20°C. The competitive MEK (mitogen-activated protein kinase kinase) inhibitor U0126 (Medchem Express, United States) was applied to culture media at a concentration of 100 μmol/L. The STAT3 (signal transducer and activator of transcription) inhibitor S3I-201 (Medchem Express, United States) was added to culture media at a concentration of 50 μmol/L. Control groups were treated with only dimethyl sulfoxide and Decitabine.
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7

In Vitro Transcription of 3pRNA

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3pRNA was in vitro transcribed from a DNA template by using the phage T7 polymerase from the Transcript Aid T7 High Yield Transcription Kit (Fermentas), as described previously (Goldeck et al., 2014 (link)). Inert AC20 control RNA (5′-CACAACAAACCAAACAACCA-3′) and polyA RNA were obtained from Biomers and Sigma–Aldrich, respectively. Murine IFNα was purchased from BioLegend. The MDM2 inhibitor AMG232 was purchased from MedChemExpress. 5-AZA, Decitabine, and ATRA were all purchased from MedChemExpress, dissolved in dimethyl sulfoxide and diluted in cell culture medium for the treatment of B16 melanoma cells.
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