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11 protocols using vorinostat

1

HDAC Inhibition and Overexpression Effects

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The pan-HDAC inhibitor vorinostat (SAHA), and the specific class IIa inhibitor TMP269, were obtained from MedChemExpress and prior to the experiment were prepared in DMSO and diluted in culture media immediately. One day after seeding onto culture dish, normal cells and HDAC4 overexpressing cells were divided into four groups: (I) control group; (II) 0.625 µM SAHA/20 µM TMP269 group; (III) 1.25 µM SAHA/40 µM TMP269 group; (IV) 2.5 µM SAHA/60 µM TMP269 group. After the above treatments for 48 h, cells were analyzed.
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2

Histone Deacetylase Inhibitors Modulate Cell Signaling

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Vorinostat (SAHA) and Trichostatin A (TSA) were purchased from MedChem Express (Shanghai, China). Anti-GFAP (sc-33673) was purchased from Santa Cruz (Dallas, TX, USA). Anti-α-SMA (A5228), Anti-Desmin (D1033), Anti-acetyl-Histone H3 (H9286), Anti-acetyl-Histone H4 (SAB5600021) and Anti-actin (A5060) were purchased from Sigma-Aldrich (St. Louis, MO, USA). Anti-Cleaved Caspase-9 (9507), Anti-Cleaved Caspase-3 (5A1E), Anti-Smad5 (12534) were purchased from Cell Signaling (Beverly, MA, USA). Anti-Smad7 (42-0400) and Bcl-2 (13-8800) were purchased from Invitrogen (Carlsbad, CA, USA). RT reagent kit and Premix Ex Taq were from TAKARA (Dalian, China). Lipofectamine 2000 was purchased from Invitrogen (Carlsbad, CA, USA). Luciferase kit was purchased from Promega (WI, USA). Apoptosis kit was purchased from BD Biosciences (San Jose, CA, USA).
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3

Optimization of Inhibitor Screening Protocol

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Drug FGF401 was purchased from CASYMCHEM; BLU-554, Geldanamycin, Imatinib, LY-294002, Parthenolide, Tanespimecin, Trichostatin A and Vorinostat were purchased from MedChemExpress. Drug details have shown in Supplementary Table S2. Antibodies FGFR4, p-ERK 1/2 and ERK 1/2 were purchased from Abclonal; Antibodies FGFR4, p-AKT (T308) and AKT were purchased from Cell Signaling Technology; Antibodies FGF19 and KLB were purchased from Abcam. HRP labeled goat anti rabbit IgG (H + L) and HRP labeled goat anti mouse IgG (H + L) were purchased from Beyotime. Antibodies details have shown in Supplementary Table S3.
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4

Evaluating Chidamide and ABT-199 in AML

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Chidamide was supplied by Chipscreen Bioscience Ltd. (Shenzhen, China). ABT-199, Z-VAD-fmk, romidepsin, and vorinostat (SAHA) are all purchased from MedChemExpress (New Jersey, USA).
Molm-13 cells were purchased from AddexBio (San Diego, USA). MV4;11 and NB4 cells were purchased from ATCC (Teddington, UK). OCI-AML2, OCI-AML3 cells were kindly provided by Prof. Bing Z Carter (MD Anderson Cancer Center, USA). All cells were tested and authenticated by an AmpFlSTR Identifiler PCR Amplification Kit (Thermofisher Scientific, USA) in the year of 2018 in our laboratory, and were monthly tested for mycoplasma using PCR method. Peripheral blood samples of healthy donors for hematopoietic stem cell transplantation (n = 11) and bone marrow samples of patients with AML (n = 36) were obtained from the First Affiliated Hospital of Xiamen University with the informed consent for research purposes only. This study was performed in accordance with the Declaration of Helsinki and approved by the Ethics Review Board of First Affiliated Hospital of Xiamen University.
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5

Cell Cycle Analysis of SAHA-Treated T24 Cells

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T24 cells treated with 10 μM SAHA (Vorinostat; MedChem Express Co., Monmouth Junction, NJ, USA) or vehicle (DMSO) for 2 days were stained with propidium iodide and subjected to flow cytometry following standard protocols. Briefly, cells were fixed with 10 mL of 70% ethanol at –20°C overnight, stained with 0.5 mL of propidium iodide/RNase staining buffer for 15 min at room temperature, and analyzed by flow cytometry.
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6

Inhibitors Modulate NF-κB and IRF Activation

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HCT116-Dual cells were treated with DMSO or inhibitors (500 nM). After a 48-h incubation, NF-κB activation was determined using QUANTI-Blue (InvivoGen; cat #rep-qbs), a secreted alkaline phosphatase detection reagent, by reading the OD at 655 nm. IRF activation was determined by measuring the relative light units in a luminometer using QUANTI-Luc (InvivoGen; cat #rep-qlc1).
The inhibitors of ABT-263/cat #S1001, AZD2014/cat #S2783, ABT737/cat #S1002, irinotecan HCl trihydrate/cat #S2217, RO-3306/cat #S7747, AZD5363/cat #S8019, BKM120/cat #S2247, azacitidine/cat #S1782, GSK343/cat #S7164, crizotinib/cat #S1068, EPZ5676/cat #S7062, GSK2118436/cat #S2807, AZD8055/cat #S1555, BMN673/cat #S7048, GSKJ4 HCl/cat #S7070, JQ1/cat #S7110, AZD7762/cat #S1532, AZD6244/cat #S1008, LY3214996/cat #S8534, GSK1120212/cat #S2673, AZD1775/cat #S1525, and milciclib/cat #S2751 were purchased from Selleck Chemicals. The milciclib/cat #HY-10424, gefitinib/cat #HY-50895, UNC1215/cat #HY-15649, cisplatin/cat #HY-17394, vorinostat/cat #HY-10221, and A-485/cat #HY-10745 were from MedChemExpress.
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7

HDAC9 Suppression in Breast Cancer

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In addition to siRNA, vorinostat (suberoylanilide hydroxamic acid [SAHA]) was also used to suppress the expression of HDAC9 in breast cancer cells. MCF-7 and BT474 were seeded in a 96-well culture plate and treated with 10 μM SAHA (vorinostat; MedChem Express Co., Monmouth Junction, NJ, USA) or vehicle (dimethyl sulfoxide [DMSO], 1:1,000) for 48 h. The drug and the medium were replenished every 24 h.
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8

Cell Proliferation Assays with LMK-235 and Vorinostat

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LMK-235(Cat# HY-18998) and Vorinostat (Cat# HY-10221) were purchased from MedChemExpress (MCE, USA). KYSE150 and TE-1 cells, treated with LMK-235 for 48 hr, were plated at 2×103 cells/well into 96-well plate in five replicates. Cell proliferation was measured using CCK-8 kit (Dojindo, Japan) at the following day (day 0) and every 24 hr after (up to day 4). Optical density (OD) was read at 450 nm by SpectraMax M5e Microplate Reader (Molecular Devices, CA, USA).
For EdU (5-Ethynyl-2´-deoxyuridine) incorporation assay, the above-mentioned cells were seeded into glass bottom dish (35 mm) at 5×104 cells/dish in triplicate. After incubation with 10 mM EdU (RiboBio Co., Ltd, China; Cat# C10310-3) for 5 hr, nuclei were counterstained with Hoechst 33342. The percentage of proliferative cells (EdU-positive) was measured within three random fields under LSM 880 confocal microscope (Carl Zeiss, Oberkochen, Germany) using 20×objective.
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9

Dose-dependent Cytotoxicity Evaluation

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ACC (hTERT) cells (15,000 cells/well) were plated in 24-well plates with complete medium. For the concentration–response curves, cells were exposed to the following drugs concentration: cisplatin (Selleckchem Chemicals, Houston, Texas, USA) (0.03–24 µM); doxorubicin (Selleckchem Chemicals) (0.001–1 µM); lenvatinib (MedChem Express, Monmouth Junction, New Jersey, USA) (0.05–2 µM); vorinostat (MedChem Express) (0.1–9 µM); everolimus (Selleckchem Chemicals) (0.5–250 nM); palbociclib (Selleckchem Chemicals) (0.03–9 uM); olaparib (Selleckchem Chemicals) (0.15–18 µM). According to cells doubling time, ACC (hTERT) cells were treated with the drugs for 4 days.
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10

TNBC Cell Lines and Antibody Assays

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Human TNBC cells (MDA-MB-231, BT-549, MDA-MB-468, HCC1806, and HCC70) were purchased from the American Type Culture Collection (ATCC, Manassas, VA) and cultured as per ATCC guidelines. All the model cells utilized were free of mycoplasma contamination. STR DNA profiling was used to confirm cell identity. Antibodies for GAPDH, p-S6, S6, p-Akt (S473), Akt, p-mTOR (S2448), mTOR, p-STAT3 (Y705), and STAT3 were purchased from Cell Signaling Technology (Danvers, MA). LIF and LIFR (LIFRα, CD118) antibodies were purchased from Santa Cruz Biotechnology (Dallas, TX). β-actin antibody was obtained from Sigma-Aldrich (St. Louis, MO). The Ki67 antibody was purchased from Abcam (Cambridge, MA). LIFR knockout (KO) model cells and synthesis of EC359 were done using protocol in our earlier publication16 (link). Vorinostat, panobinostat, romidepsin, and givinostat were purchased from MedChemExpress (Monmouth Junction, NJ).
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