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15 protocols using tmp269

1

Epigenetic Modulation in Mice

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The class II HDAC inhibitor TMP269 was purchased from Selleckchem (S7324), the DNMT inhibitor 5-Aza was from Sigma-Aldrich (A3656), PEG300 was from Merck (8.17019), NMP was from Sigma-Aldrich (328634). Intraperitoneal injections (30-gauge needle) started at the sixth week of age and continued daily for 10–15 weeks. Mice received vehicle (PEG300 and NMP), TMP269 (25 mg/kg), 5-Aza (0.05 mg/kg), a combination of the two compounds (TMP26 + 5-Aza, 25 mg/kg and 0.05 mg/kg, respectively). TMP269 and 5-Aza were diluted in PEG300 (500 µl/kg) and NMP (250 µl/kg). The final volume of drug or vehicle injected per mouse was 750 µl/kg body weight.
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2

Cytotoxicity Evaluation of HDAC Inhibitors

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The cytotoxicity of cells treated with TSA (Sigma-Aldrich), NIC, Ms275, HPOB (Sigma-Aldrich), TMP269, RGFP966, PCI-34051 (Selleckchem) or VPA (Cayman Chemical) was measured by MTT assay as described previously 13 (link).
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3

Cytotoxicity Evaluation of HDAC Inhibitors

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The cytotoxicity of cells treated with TSA (Sigma-Aldrich), NIC, Ms275, HPOB (Sigma-Aldrich), TMP269, RGFP966, PCI-34051 (Selleckchem) or VPA (Cayman Chemical) was measured by MTT assay as described previously 13 (link).
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4

Inducing HASMC Calcification for Study

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HASMCs were obtained from Cell Applications (#355–75a). To induce calcification in HASMCs, cells were treated with DMEM supplemented with 10% fetal bovine serum, 10 mM β-glycerophosphate disodium, 50 μg/mL L-ascorbic acid, and 10 nM dexamethasone, as previously described48 . To assess the effects of HDAC9 inhibition on calcification, cells were treated with either 100 nM TMP269 (Selleckchem, Cat No. S7324) or vehicle (DMSO) control. Media and treatment were replenished every 24 hours for 7–10 days. Either RNA was isolated from cells to assess mRNA levels (see below) or the cells were fixed in 10% formalin and incubated with Alizarin Red or von Kossa stain to detect calcification. For Alizarin Red staining, cells were treated with a 2% Alizarin Red solution (pH 4.1–4.3) for 20 minutes, followed by multiple washes with distilled water. For von Kossa staining, cells were incubated in 5% silver nitrate solution and exposed to a 100 Watt bulb for 1–2 hours. Removal of unreacted silver was performed by subsequent treatment with 5% sodium thiosulfate. Cells were then washed with distilled water.
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5

Cell lines and drug treatments

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A375, BCPAP, TPC1, MDA-MB231 were cultured in DMEM, H1299 and PC3 were cultured in RPMI and HCT-116 were cultured in IMDM; all cell lines were grown at 37 °C/5% CO2 in medium added with 10% fetal bovine serum and 1% penicillin – streptomycin. All cell lines were routinely tested for Mycoplasma contamination and authenticated by SNP profiling at Multiplexion GmbH (Heidelberg, Germany), last authentication was performed in January 2019. All cell lines were treated for 24–48 – 72 h (depending on the assay performed) with different concentrations of the following drugs: Tubacin, SAHA, Valproic acid (Sigma-Aldrich, St. Louis, Missouri, USA), TMP-269, PCI-34051, 4SC-202 (Selleckchem, Munich, Germany) or the respective control. All drugs were resuspended in DMSO (Sigma-Aldrich, St. Louis, Missouri, USA) except for Valproic acid which were reconstituted in water. For proliferation assays, treated cells were counted by trypan blue exclusion with Countess® Automated Cell Counter (Thermo Scientific, Waltham, Massachusetts, USA).
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6

Isolation and Stimulation of Mouse Hepatocytes

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Isolation of mouse hepatocytes was based on a previously published protocol (36 ). Male mice (8-10 weeks of age) were used in this study. After overnight incubation, isolated hepatocytes were incubated in Krebs-Henseleit bicarbonate (KRB) buffer (pH 7.4, 1 × KRB buffer, HEPES (15630-056, Gibco), NaOH (25080-060, Gibco), 2mM glucose) (control) and stimulated with either BHB (either 1 or 10 mM) (A1153, Sigma Aldrich), trichostatin A (TSA) (10nM or 100nM) (Sigma Aldrich, Cat. no. 58880-19-6), TMP269 (0.1uM, 1uM or 10uM) (Selleckchem Cat. no. S7324) or AR319277 (AR277) (10nM, 100nM or 1uM) (Arena Pharmaceuticals, CA, USA) in duplicates, triplicates, or quadruplicates for 4 hours at 37 °C with 5% CO2. After stimulation, media was removed and cells were lysed in RLT buffer:beta mercaptoethanol (100:1) (74034, Qiagen, Germany). All lysates were kept at −80 °C until analysis. Mice were normalized independently and collected in the same analysis; n is the number of biologically independent samples for which data were averaged from duplicate, triplicate, or quadruplicate measurements.
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7

HDAC Inhibition and TNF-α Secretion Assay

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For the HDAC inhibition assay, cells were pretreated with TSA (5nM, Sigma-Aldrich). For the TNF-α secretion assay, human THP1 or murine macrophage RAW264.7 cells were treated with TSA, VPA (0.1 μM), Ms275 (5 μM), NIC (0.5 μM) HPOB (0.5 μM) (Sigma-Aldrich), TMP269 (0.1 μM), PCI-34051 (0.1 μM), RGFP966 (0.5 μM) (Selleckchem), paragyline (3 μM), 5'azacytidine (10 μM) or anacardic acid (10 μM) (Cayman Chemical). The concentration of HDAC inhibitors used did not induce cytotoxicity (Supplementary Fig.5 a-h). It is important to note that at high concentrations, HDAC inhibitors blocked TNF-α secretion (Supplementary Fig. 7b-i) 30 (link).
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8

Inducing HASMC Calcification for Study

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HASMCs were obtained from Cell Applications (#355–75a). To induce calcification in HASMCs, cells were treated with DMEM supplemented with 10% fetal bovine serum, 10 mM β-glycerophosphate disodium, 50 μg/mL L-ascorbic acid, and 10 nM dexamethasone, as previously described48 . To assess the effects of HDAC9 inhibition on calcification, cells were treated with either 100 nM TMP269 (Selleckchem, Cat No. S7324) or vehicle (DMSO) control. Media and treatment were replenished every 24 hours for 7–10 days. Either RNA was isolated from cells to assess mRNA levels (see below) or the cells were fixed in 10% formalin and incubated with Alizarin Red or von Kossa stain to detect calcification. For Alizarin Red staining, cells were treated with a 2% Alizarin Red solution (pH 4.1–4.3) for 20 minutes, followed by multiple washes with distilled water. For von Kossa staining, cells were incubated in 5% silver nitrate solution and exposed to a 100 Watt bulb for 1–2 hours. Removal of unreacted silver was performed by subsequent treatment with 5% sodium thiosulfate. Cells were then washed with distilled water.
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9

Regulation of Pancreatic Islet Maturation

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NPICCs were seeded in 24-well plates in B-IC medium in the presence or absence of 1000 µM butyrate plus/minus 5 mM β-hydroxybutyrate (BHB), a specific antagonist of GPR41, or 200 nM GPLG0974, a specific antagonist of GPP43, or a combination of both inhibitors (Merck, Darmstadt, Germany). After six days of incubation, cells were harvested and assessed for the expression of islet maturation and differentiation related cell markers by qRT-PCR. To study the effects of HDACs on NPICCs maturation we tested several specific small molecule HDAC is including class I selective inhibitor MS275 (1 µM) (inhibition of HDAC 1, 2, 3, and 8) and 1 µM mocetinostat (inhibition of HDAC 1, 2, 3, and 11) as well as class IIa selective inhibitors TMP269 and MC1568 (inhibition of HDAC4, 5, 7, and 9) (SelleckChem, Houston, USA). After six days, cells were harvested and processed for RT-qPCR.
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10

HDAC Inhibition and TNF-α Secretion Assay

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For the HDAC inhibition assay, cells were pretreated with TSA (5nM, Sigma-Aldrich). For the TNF-α secretion assay, human THP1 or murine macrophage RAW264.7 cells were treated with TSA, VPA (0.1 μM), Ms275 (5 μM), NIC (0.5 μM) HPOB (0.5 μM) (Sigma-Aldrich), TMP269 (0.1 μM), PCI-34051 (0.1 μM), RGFP966 (0.5 μM) (Selleckchem), paragyline (3 μM), 5'azacytidine (10 μM) or anacardic acid (10 μM) (Cayman Chemical). The concentration of HDAC inhibitors used did not induce cytotoxicity (Supplementary Fig.5 a-h). It is important to note that at high concentrations, HDAC inhibitors blocked TNF-α secretion (Supplementary Fig. 7b-i) 30 (link).
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