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10 protocols using cgp57380

1

Synthesis and Handling of CDKI-73

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Synthesis of CDKI-73 has previously been described [33 (link)]. Flavopiridol and CGP57380 were purchased from Sigma-Aldrich (Castle Hill, Australia). They were dissolved in dimethylsulfoxide (DMSO) at a stock concentration of 10 mM, and stored at -20°C in small aliquots.
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2

Regulation of SIRT1 Activity by DYRK Kinases

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siRNA mediated inhibition was utilized to reduce the expression of endogenous DYRK1 (Invitrogen, HSS103011), DYRK2 (Invitrogen, HSS112282 or Invitrogen, HSS189079 or Qiagen, 1027410). AllStars negative control siRNA was purchased from Qiagen (Qiagen, SI03650318). siRNA transfection was performed using RNAiMax (Invitrogen, 13778030) with two or three repeated every 48 h. To determine kinase catalyzing SIRT1 T530 phosphorylation, the following kinase inhibitors were used: for DYRKs inhibition, Harmine (Sigma-Aldrich, 286044), (−)-Epigallocatechin gallate (Sigma-Aldrich, E4143) and CGP57380 (Sigma-Aldrich, C0993); for JNK1 inhibition, SP600125 (Sigma-Aldrich, S5567); for Cdk1 inhibition, RO-3306 (Sigma-Aldrich, SML0569). These inhibitors were added to HCT116 cells growing in 96-well plates with six different concentrations of each inhibitor, representing 125, 25, 5 times lower and 5, 25, 125 times higher than IC50. SIRT1 T530 phosphorylation levels were detected by T530-pSIRT1 antibody immunofluorescent staining (data not shown). Validations were performed by Western blots with each inhibitor at IC50 as shown in Figure 1 and in supplemental Figure S1.
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3

Pharmacological Inhibition of MEK and Mnk1 Pathways

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The MEK inhibitor α-[amino[(4-aminophenyl)thio]methylene]-2-(trifluoromethyl)benzeneacetonitrile (SL327) (Sigma-Aldrich, St. Louis, MO, USA) was dissolved in a vehicle solution of 2.5% dimethyl sulfoxide (DMSO) and 2.5% Cremophor EL saline solution at 30 mg/kg [46 (link)]. The Mnk1 inhibitor CGP57380 (Sigma-Aldrich) was dissolved in a vehicle solution of 2.5% dimethyl sulfoxide (DMSO) at 10 mg/Kg [30 (link)]. SL327 and CGP57380 were injected intraperitoneally (IP) at a volume of 3.3 mL/kg 1 h before the social interest test. The control mice received the same volume of the vehicle.
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4

Culturing Leukemic Cell Lines and Isolating Primary Blasts

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The human Ph+ ALL cell line SUP-B15 (the American Type Culture Collection, CRL-1929), CML cell line K562 (Hematology Lab, West China Hospital of Sichuan University, Sichuan, China 610041), and primary leukemic blasts were maintained in RPMI 1640 or IMDM (Hyclo, USA), supplemented with 5% penicillin/streptomycin and 10% fetal bovine serum (FBS) in a humidified atmosphere at 37°C in a 5% CO2 incubator. Blast cells were isolated by Ficoll density gradient centrifugation (TBD Science, Tianjin, China). Ribavirin (Sigma, USA) was dissolved in H2O at a stock concentration of 20mmol/L and sterile filtered, kept at -80°C in small aliquots. Imatinib (Basel, Switzerland), U0126 (Beyotime), and CGP57380 (Sigma) were prepared in dimethyl sulfoxide (DMSO) stored at -20°C with 10 mmol/L and diluted into suitable concentrations before being used.
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5

Pharmacological Inhibition of p38 Signaling

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U2OS cells (purchased from ATCC) were cultured in Dulbecco’s modified Eagle medium (DMEM, Sigma, D5796) supplemented with 10% fetal bovine serum (FBS, Thermo Scientific, E6541L), 2 mM L-Glutamine (LabClinics, M11–004) and 100 μg/ml penicillin-streptomycin (LabClinics, P11-010). For the inhibition of p38α, we used 1 μM PH-797804 (Selleckchem, S2726) or 10 μM SB203580 (Axon MedChem); both compounds can also inhibit p38β, although PH-797804 has been reported to preferentially inhibit p38α44 (link). MK2 was inhibited using 10 μM MK-2 Inhibitor III (Calbiochem) or 10 μM PF 3644022 (Sigma, PZ0188), whereas MSK activity was inhibited using 5 μM SB 747651 (Axon MedChem), and MNK activity was inhibited using 10 μM CGP-57380 (Sigma). MitoQ (kind gift from M. Murphy, Cambridge, UK) was used at 0.5 μM. Cisplatin was used at 50 μM, and the caspase inhibitors Z-VAD(OMe)-FMK (SM Biochemicals LLC SMFMK001) and Q-VD-OPH (SM Biochemicals LLC SMPH001) at 50 μM. The inhibitors were dissolved in DMSO and the total concentration of DMSO in the culture medium did not exceed 1%.
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6

Inhibitors of p38 MAPK, MNK1, and eIF4E

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SB239063 (supplementary fig. S1a, Supplementary Material online) and SB203580 (supplementary fig. S1b, Supplementary Material online) (structurally related p38 α/β MAPK inhibitors), CGP57380 (MNK1 inhibitor), and 4EGI-1 (eIF4E inhibitor) were procured from Sigma (Steinheim, Germany). These inhibitors were dissolved in Dimethyl sulfoxide (DMSO), thereby DMSO was used as a vehicle control in the experiments.
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7

NK Cell Isolation and Characterization

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Fluorescent-labeled antibodies used were anti-NK1.1 (clone PK136), anti-NKp46 (29A1.4), anti-CD3 (145–2C11), anti-CD19 (eBio1D3), anti-CD45.1 (A20), anti-CD45.2(104), anti-Eomes (Dan11mag), anti-TNFα (MP6-XT22), and anti-IFNγ (XMG1.2), all from Thermo Fisher Scientific. Fluorescent-labeled anti-CD49a (Ha31/8) was purchased form BD Biosciences. Biotinylated anti-Ly49H (3D10) was produced in-house. MG-132(Cell Signaling 2094S), Actinomycin D (Sigma A9415), Cycloheximide (Sigma C7698), CGP-57380 (Sigma C0993), ISRIB (Sigma SML0843), Pyr-41 (Sigma N2915), BMS-345541 (Sigma B9935), Tpl2 kinase inhibitor (Santa Cruz sc-204351), PD90859 (Sigma P215) were used at the indicated concentrations. Where indicated, NK cells were enriched to a purity >90% NK1.1+CD3-CD19- cells, verified by flow cytometry for each experiment, from RAG1−/− splenocytes using CD49b microbeads with LS columns (Miltenyi Biotec) or from C57BL/6 mice using EasySep Mouse NK cell isolation kit (StemCell Technologies) according to manufacturer’s instructions. m157-Tg or WT murine embryonic fibroblasts (MEFs) were isolated from day 11.5–13.5 embryos.
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8

Small Molecule Optimization Protocol

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Final concentrations of chemicals and inhibitors used were 0.02% DMSO, 1 µM 4-OHT (Millipore), 20 nM RAD001 (Selleck Chemicals), and 10 µM CGP57380 (Sigma).
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9

Inhibiting Cellular Pathways in Viral Infection

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CGP57380 (C0993) was purchased from Sigma-Aldrich and used at 20 μM. Rapamycin (#9904), LY294002 (#9901), U0126 (#9903) and SB203580 (#5633) were purchased from Cell Signaling Technology (Danvers, MA, USA) and used at 100 nM, 20 μM, 10 μM, and 10 μM respectively. Mouse monoclonal antibodies against NDV phosphoprotein (P protein) and nucleocapsid protein (NP protein) were prepared in our laboratory. Puromycin and mouse monoclonal anti-Puromycin 12D10 (MABE343) were purchased from Merck Millipore (Billerica, MA, USA). Mouse monoclonal anti-FLAG M2 antibody (F1804) and anti-β-actin antibody (A1978) were purchased from Sigma-Aldrich (St. Louis, MO, USA), and other primary antibodies were from Cell Signaling Technology. Horseradish peroxidase (HRP)-conjugated goat anti-rabbit or -mouse secondary antibody, tetramethyl rhodamine isothiocyanate (TRITC)-conjugated goat anti-mouse and fluorescein (FITC)-conjugated goat anti-rabbit secondary antibody were purchased from Jackson ImmunoResearch Laboratories (West Grove, PA, USA). Small interfering RNAs (siRNAs) designed specfically for human Mnk1 (sc-39106), eIF4E (sc-35284) and eIF4G (sc-35286) were from Santa Cruz Biotechnology (Dallas, TX, USA). RC DC Protein Assay kit (500–0199) was purchased from Bio-Rad.
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10

Prostate Cancer Cell Line Maintenance and Analysis

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Human PC cells lines CWR22Rv1, LNCaP, PC-3 and DU145 PC cells were maintained in RPMI supplemented with 10% fetal bovine serum (FBS) and 1% penicillin-streptomycin. Gal/VNPT55 were synthesized in our laboratory [70 (link)] and dissolved in DMSO. Cell culture reagents (FBS, RPMI, and DMEM) were from Invitrogen (Carlsbad, California, USA). U0126, β-actin, Gapdh, Mnk1/2, eIF4E, peIF4E, N-Cadherin, E-Cadherin, Snail, Slug, MMP-2/-9, BMI-1 anti-mouse and anti-rabbit horseradish peroxide (HRP) were purchased from cell signaling (Danvers, Massachusetts, USA). CGP-57380 was purchased from Sigma Aldrich (St. Louis, Missouri, USA). Twist1 polyclonal, EZH2, RhoA, Oct-4 and Nanog antibodies were from Santa Cruz (Dallas, Texas, USA) and the mouse monoclonal antibody from Abcam. β-Catenin, CD44 and VEGF were from BIOSS (Woburn, Massachusetts, USA).
Treated cells were lysed with radioimmunoprecipitation assay (RIPA) buffer (Sigma), supplemented with protease inhibitors (Roche, Indianapolis, Indiana, USA), 1 mM EDTA and 1 mM PMSF (Sigma). Western blotting was done as previously described [58 ].
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