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19 protocols using pf 06424439

1

DGAT2 Inhibitor Protocol for HEK293T Cells

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DGAT2 inhibitor (PF-06424439) was purchased from Sigma (catalog no. PZ0233). To block TAG synthesis, HEK293T cells in 6 × 10 cm plates were starved by treatment with low-glucose DMEM (Sigma, catalog no. D5523) without FBS, supplemented with 10 µM DGAT2 inhibitor PF-06424439 for 24 h before collection.
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2

Cancer Cell Viability Assay

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HCCs and CR-CSCs were seeded (3 × 105 cells/well) in 24-well plates (Corning; #CLS3527) in NG media for 24, 48 and 72 hrs, supplemented with either Oxaliplatin (Sigma Aldrich; #O9512) or Atorvastatin (Sigma Aldrich; #PZ0001) or PF-06424439 (Sigma Aldrich; #PZ0233), used singularly (for HCCs and CR-CSCs) or in double combination (only for CR-CSCs). Moreover, CR-CSCs were also treated with the same drugs in HG for the same time points. Subsequently, cells were collected and stained with 2 μg/mL Propidium Iodide (PI) (Sigma Aldrich; #P4864) in PBS 1X soon before the acquisition at the FACSCanto II cytometer, by using an excitation of 488 nm.
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3

GERV Induction and Lipid Quantification

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For GERV experiments, Cos7 cells were first transfected for 24 h with the indicated eGFP plasmids and RFP-KDEL. The culture media of the cells was next replaced by a hypotonic culture media (DMEM: H2O, 1:20). The cells were then incubated at 37 °C, 5% CO2 for 5 mins, to induce GERVs, and then they were visualized. Neutral lipids’ synthesis was triggered by the addition of OA and Z-stacks imaging of different entire cells was performed before and 15 mins after OA administration, as described in ref. 77 (link). For the DGAT1 (Sigma, PF-04620110) and DGAT2 (Sigma, PF-06424439) inhibitors used in Cos7, the dilution applied was 1/1000 for a final concentration of 3 μg/mL. In the GERV protocol, the inhibitors were added to the cell medium before cell transfection or during the hypotonic solution addition. The signal of PLIN3 or fragments thereof was quantified for tens of GERVs by depicting the mean signal on the GERVs which was subtracted the bulk cytosolic signal; this resulted signal was normalized to the cytosolic signal.
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4

Evaluating Lipid Modulators in Feline Liver Organoids

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Drugs (see Table S1 for targets and references) were dissolved in dimethyl sulfoxide and used at concentrations as described in the literature. Initial screening consisted of culturing undifferentiated feline liver organoids from 3 donors in the presence or absence of the drugs, as mentioned in Table S1, and in the presence of additional fatty acids to stimulate lipid accumulation. The TAG assay was used to determine TAG amounts. Drugs that inhibited TAG accumulation in organoids from 3 cats were selected for further testing. Selected drugs and concentrations used after initial screening were 5‐aminoimidazole‐4‐carboxamide 1‐β‐D‐ribofuranoside (AICAR; Sigma) at a concentration of 2 mM, T863 (Sigma) at a concentration of 20 μM, and PF 06424439 (Sigma) at a concentration of 50 μM. Organoids were cultured for 24 hours in the presence of additional fatty acids and drugs (or vehicle controls) before sampling.
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5

Blocking Lipid Droplet Formation

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The combination of diacylglycerol acyltransferase DGAT inhibitors (iDGAT) (DGAT 1 inhibitor: A922500; DGAT2 inhibitor: PF-06424439, both Sigma-Aldrich Chemie GmbH) served to block the lipid droplets formation. MSC-2 cells were pre-incubated with 100 nM iDGAT for 1 h, and then cultured with the indicated FFA in the presence of 100 nM iDGAT for additional 24 h.
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6

Ferroptosis Sensitivity Assay Protocol

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Cells were seeded at 2000 cells per well on a 96-well plate and were grown overnight at 37 °C. The following day, cells were treated with the following drugs at indicated concentrations for 72 h for IC50 assays: erastin (Cayman Chemicals), RSL3 (Apex Bio), TBH(Sigma), nutlin-3a (Calbiochem), cisplatin (Acros Organics), Etoposide (Sigma), Camptothecin (Cayman Chemicals), and doxorubicin (Cell Signaling). Because fetal bovine serum and culture media can contain significant levels of glutathione, pyruvate, and other agents that can influence sensitivity to ferroptosis (10 (link)), all ferroptosis sensitivity assays were performed in low serum/low glucose (2% fetal bovine serum, DMEM low glucose (Corning Cellgro, 1 g/l glucose)). For rescue assays, cells were pretreated with ferrostatin (Cayman Chemicals) or liproxstatin (Sigma) for 30 min prior to treatment with RSL3 for 24 h. For lipid droplet assays, cells were pretreated overnight with oleic acid (Sigma, O3008), the DGAT2 inhibitor PF-06424439 (Sigma, PZ0233), or vehicle (fatty-acid–free BSA), and viability was assayed using Trypan Blue (Corning, 25-900-CI) after 72 h. At assay endpoint, cells were treated with Alamar blue (Life Technologies Dal1025) for 3 h at 37 °C and absorbance was read using a SynergyHT plate reader (BioTek). GraphPad Prism software was used to perform the data analysis.
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7

PF-06424439 Effect on MCF7 Cells

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PF-06424439 was obtained from Sigma-Aldrich (Saint Louis, MO, USA, #PZ0233). The powder was dissolved in sterile distilled water to make a stock concentration of 18.65 mM and stored at −20 °C in small aliquots. The effect of PF-06424439 on MCF7 cells was tested at 10 µM by dissolving the appropriate volume of the stock solution in complete medium. PF-06424439 solutions were freshly prepared for each experiment.
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8

Chemical Compounds for Biological Studies

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VPS34 IN-1 (#17392), PIK-III (#17002), Triacsin C (#10007448), and Orlistat (#10005426) were purchased from Cayman Chemical (Ann Arbor, Michigan). Remdesivir was purchased from Target Molecule Corp. (T7766, Boston, Massachusetts). T863 (#SML0539) and PF06424439 (#PZ0233) were purchased from Sigma-Aldrich (St. Louis, Missouri). All chemicals were resuspended in dimethylsulfoxide (DMSO).23 (link)
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9

Endothelial Cell Oxidative Stress Assay

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HUVEC were a kind gift of Špela Zemljič Jokhadar (Institute of Biophysics, Medical Faculty, University of Ljubljana, Ljubljana, Slovenia). Dulbecco’s Modified Eagle Medium (DMEM) high glucose, fetal bovine serum (FBS), Hanks’ balanced salt solution (HBSS), Dulbecco’s phosphate buffered saline (DPBS), L-glutamine, fatty acid free bovine serum albumin (FAF-BSA), NAC, α-tocopherol, resazurin sodium salt, NR, 7-aminoactinomycin D (7-AAD), Hoechst 33,342, T863, PF-06424439, cacodylic acid, sodium hydroxide, ethanol, acetic acid, sucrose, osmium tetroxide, formaldehyde, and glutaraldehyde were obtained from Sigma Aldrich (St. Louis, MO, USA), TrypLE Select and CyQuant Direct Cell Proliferation Assay Kit from Life Technologies (Carlsbad, CA, USA). OA was from Cayman Chemical (Ann Arbor, MI, USA), BODIPY 493/503 and CM-H2DCFDA from Thermo Fisher Scientific (Waltham, MS, USA).
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10

Lipid Peroxidation Assay with Silica NPs

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Lipid
peroxidation was determined after the cells were exposed to silica
NPs for 6 h. Cells were pre-incubated as indicated with 500 μM
Trolox (Sigma) for 1 h at 37 °C prior to addition of the NPs.
Additionally, for some experiments, cells were pre-incubated for 1
h with the DGAT-1 inhibitor A 922500 (Sigma-Aldrich) and/or the DGAT-2
inhibitor PF-06424439 (Sigma-Aldrich) at 5 μM. The cells were
collected and resuspended in PBS containing 2 μM C11-BODIPY
581/591 (Thermo Fisher Scientific). The cells were then incubated
for 30 min in the dark at 37 °C, and the analysis was performed
using the BD LSRFortessa flow cytometer operating with BD FACS-DIVA
software (BD Biosciences). To evaluate the content of lipid droplets,
cells were incubated with BODIPY 493/503 (Thermo Fisher Scientific)
for 15 min at 37 °C. Then, cells were harvested and analyzed
by using the BD LSRFortessa flow cytometer.
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