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18 protocols using azacitidine

1

Demethylation Effects on Pancreatic Cell Lines

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2 × 105 cells of MIA PaCa-2, PANC-1 and hTERT-HPNE were plated in 6-well plates. On the next day, cells were washed and treated with either azacitidine (Sigma-Aldrich) or decitabine (Sigma-Aldrich) for the following 96 h. During the treatment period, cells were washed daily and fresh medium containing the appropriate concentration of the demethylating agent was used. In azacitidine (Sigma-Aldrich) and decitabine (Sigma-Aldrich) treatments, PANC-1 were treated with a final concentration of 5 μM and MIA PaCa-2 and hTERT-HPNE were treated with a final concentration of 1 μM. Vehicle-treated cells (water/acetic acid 1:1 v/v) were used as control for both azacitidine (Sigma-Aldrich) and decitabine (Sigma-Aldrich) treatments. Technical triplicates were used in each experiment.
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2

Intravesical Azacitidine Therapy for BBN-Induced Bladder Tumors

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Female Sprague–Dawley rats weighing between 200 and 230 g were purchased from the National Laboratory Animal Center. Urinary bladder tumors were induced by administration of 0.05% N-butyl-N-(4-hydroxybutyl) nitrosamine (BBN, Sunshine Chemical), dissolved in drinking water, for 20 weeks, as described previously [22 (link)]. The therapeutic effects of intravesical azacitidine (CAS no.320-67-2, Sigma-Aldrich, St. Louis,, MO, USA) on bladder tumorigenicity in BBN-induced rats were determined by IVI of azacitidine at 1, 5, 9, 13, and 17 weeks. The IVI protocol was as follows: all rats were anesthetized by intraperitoneal administration of Rompun (6 mg/kg) and Zoletil (30 mg/kg). A sterile polyethylene catheter (PE-50) was then inserted into the bladder through the urethra, and all urine was aspirated. The rats in the BBN-induced group underwent IVI with 0.2 mL azacitidine (0, 10, or 50 μM; n = 5, n = 6, n = 6, respectively; control without BBN, n = 3) under 1 h of continuous sedation. The non-BBN-induced group of rats underwent IVI with 0.2 mL PBS under 1 h of continuous sedation. The rats were euthanized by asphyxiation with CO2 20 weeks after BBN induction. Dissected rat bladders were photographed and used for further analysis.
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3

Evaluating Cytotoxic Drug Combinations

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Ponatinib, cladribine, cytarabine, selinexor, JQ1 and venetoclax were purchased from Selleck Chemicals (Houston, TX, USA), dasatinib from ChemieTek (Indianapolis, IN, USA), rapamycin from Calbiochem (San Diego, CA), hydroxyurea (HU) and azacitidine from Sigma-Aldrich (St. Luis, MO, USA). Stock solutions of most drugs were prepared by dissolving in dimethylsulfoxide (DMSO; Sigma-Aldrich); azacitidine was dissolved in 50% acetic acid, and HU in distilled water. RPMI 1640 medium and antibiotics (penicillin, streptomycin) were purchased from Lonza (Basel, Switzerland), amphotericin B from PAN‐Biotech (Aidenbach, Germany), fetal calf serum (FCS) from Gibco Life Technologies (Carlsbad, California, USA), and 3H-thymidine from Perkin Elmer (Waltham, MA, USA).
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4

Cytotoxic Agents in Cancer Treatment

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Doxorubicin (Sigma, St. Louis, USA), 5-aza-2′-deoxycytidine (decitabine/5-AZA-CdR, Sigma), azacitidine (Celgene, Summit, NJ, USA), cisplatin (Sigma), gemcitabine (Sigma), etoposide (Sigma), docetaxel (Sigma), paclitaxel (Sigma), vinblastine (Sigma), panobinostat (Sigma), vorinostat (Sigma) and bortezomib (Sigma) were added from a stock solution to the 10% serum-containing RPMI medium (Gibco, Waltham, MA, USA). Doxorubicin, etoposide, docetaxel, paclitaxel, vinblastine, panobinostat, vorinostat and bortezomib were dissolved in dimethyl sulfoxide (DMSO; Sigma), cisplatin was dissolved in 10% DMSO (Sigma) in 10% serum-containing RPMI, and 5-AZA-CdR, azacitidine and gemcitabine were dissolved in distilled water. Dose calculation was based on human dosages and previous publications [10 (link)].
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5

Combination Therapy Optimization

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Azacitidine was purchased from Sigma-Aldrich (St Louis, MO, USA), romidepsin from Selleckchem (Houston, TX, USA) and IFN-α (Intron A) from Merck Sharp and Dohme (Kenilworth, NJ, USA).
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6

Combination Therapy Preparation Protocol

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Azacitidine (5-AZA, kindly given by Celgene Italia), Chloroquine (CQ, Sigma, St. Louis, MO) and Leupeptin (Leu, Sigma, St. Louis, MO) were freshly prepared in RPMI1640 medium for each experiment.
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7

Cytotoxicity Assay for Anticancer Drugs

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Azacitidine (Sigma), cisplatin (Teva), cytarabine (Sigma), etoposide (Teva), fludarabine (Sagent), melphalan (Sigma), methotrexate (Hospira), paclitaxel (Hospira), vincristine (Hospira), 5-FU (Teva), doxorubicin (APP Pharmaceuticals), and anakinra (Amgen) were stored according to manufacturer’s recommendation. Lipopolysaccharide (LPS) from E. coli serotype 0111:B4 was purchased from Enzo Life Sciences. Nilotinib and sorafenib (LC Laboratories) and ponatinib (Tocris Bioscience) were dissolved in DMSO and stored at −80 °C. Insulin was purchased from Sigma. Trichloroacetic acid (TCA) was purchased from Fisher Scientific. Antibody against IL-1β (ab9722) was purchased from Abcam, phospho-JNK (9251) and phospho-p38 MAPK (9211) from Cell Signaling Technology, and p38 MAPK (sc-535) from Santa Cruz Biotechnology.
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8

Cell Culture Conditions for Cancer Research

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GSCs, 448T, X01, X02, and 528 for PN and 0502, 83, and 1123 for MES, were cultured in DMEM/F-12 supplemented with B27 (Invitrogen, Carlsbad, CA), EGF (10 ng/ml, R&D Systems, Minneapolis, MN), bFGF (5 ng/ml, R&D Systems), 50 U/mL penicillin, and 50 U/mL streptomycin at 37 °C with 5% CO2. The cells were kindly provided by Jong Bae Park (National Cancer Center, South Korea) (448T, X01, X02, 528, 83, and 1123) and Myung-Jin Park (KIRAM, South Korea) (0502). Pioglitazone was purchased from Santa Cruz or Sigma-Aldrich. Troglitazone, SU6656, dasatinib, and gefitinib were obtained from Santa Cruz (Dallas, TX). 15-Deoxy-∆-11,13-prostaglandin J2 (15d-PGJ2), T0070907, azacitidine and bafilomycin A1 were from Sigma-Aldrich (St. Louis, MO). U0126 and helenalin were from Merck (Darmstadt, Germany) and ChemFaces (Hubei, China), respectively. ActiveMax® Recombinant human TNF-alpha was obtained from Acrobiosystems (Newark, DE).
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9

Cell Proliferation Assay using MTT

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Cell proliferation was analyzed using the 3-(4,5-dimethylthiazol-2yl)-2,5-diphenyltetrazolium bromide (MTT) assay. After 24, 48 and 72 hr of treatment, the MTT reagent (Sigma) was added, and the mixture was incubated for 3 hr at 37°C. Dimethyl sulfoxide was then added, and the absorbance was measured at 595 nm by a microplate reader (Bio-Rad, Hercules, CA, USA).
Cisplatin, azacitidine, and paclitaxel were purchased from Sigma and dissolved in 0.1 M NaCl solution. The aliquots were stored at –20°C and thawed immediately prior to use. For the cytotoxicity assay, cells were seeded at a density of 20,000 cells per well in 96-well plates. The next day, fixed doses of the drugs were added, and the mixtures were incubated for an additional 72 hr. The drug concentrations are listed in Supplementary Table 5. Cell viability was estimated by the MTT assay, and the percentage of cell survival was defined as the relative absorbance of the treated cells versus the untreated cells. All assays were repeated three times.
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10

Azacitidine Treatment of TET2/ASXL1 Mutant Mice

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Azacitidine was purchased from Sigma Aldrich, freshly dissolved in PBS at a concentration of 0.5mg/mL prior to each dosing, and administered once a day at a dose of 2.5mg/kg using intraperitoneal (i.p.) injection. Drug treatment was initiated 3 months after transplantation of engineered CD34+ cells and confirmation of engraftment by flow cytometry of hCD45+ staining of peripheral blood. Genomic DNA was isolated from peripheral blood at the time of engraftment and only mice with TET2 or ASXL1 indel fraction >0.01 in peripheral blood at the time of engraftment were included in the subsequent analysis. Azacitidine was administered on Days 1–5 of a 14 day cycle. Mice were treated for a total of 12 weeks (6 cycles), and bulk bone marrow and sorted populations of cells were analyzed for TET2 and ASXL1 indel fraction using NGS. 3–4 mice were included in each experimental arm.
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