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6 protocols using rpmi 1640 medium with l glutamine

1

Minocycline and Irinotecan Combination in EOC

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Human epithelial ovarian carcinoma cell lines OVCAR-5 (derived from the ascitic fluid of EOC patient without prior treatment; tumor characterized to be platinum-resistant) and OVCAR-4 (derived from the ascitic fluid of platinum-refractory EOC patient) were used to assess the combinatorial effects of minocycline and irinotecan. Authenticated OVCAR-5 and OVCAR-4 cells were obtained from ATCC in 2011 and Fox Chase Cancer Center in 2015, respectively, tested free of mycoplasma contamination using commercially available kits (MycoAlert™, Lonza; Latest date: April 2017), and cultured according to the supplier’s instruction. Authenticated OVCAR-5 and OVCAR-4 were propagated for less than 30 and 4 passages after resuscitation, respectively. No further authentication of the cell line was done by the authors. OVCAR-5 cells were grown in RPMI-1640 medium (with L-glutamine, Cellgro) supplemented with 10 % heat-inactivated fetal calf serum (Gibco), 100 U/mL penicillin and 100 μg/mL streptomycin. OVCAR-4 cells were cultured in equivalent conditions, with the exception of supplementing 0.2 U/mL bovine insulin in the medium, as recommended by the supplier. Both cells lines were maintained in an incubator at 37 °C in an atmosphere of 5% CO2, passaged and plated at required cell concentrations under sterile conditions.
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2

C. auris 0390 Strain Propagation

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Candida auris 0390 strain was obtained from the Centers for Disease Control and Prevention Antibiotic Resistance Isolate Bank (CDC, Atlanta, GA, USA).28 (link) This isolate is resistant to amphotericin B, azoles and shows decreased echinocandin sensitivity. Cryopreserved yeast cells stored as glycerol stocks in an ultra-low freezer (set at −80 °C) were propagated by streaking a loopful of yeast cells onto agar plates of yeast-peptone-dextrose (YPD). C. auris 0390 strain was cultured overnight into flasks (150 ml) by inoculating yeast cells in 20 ml of liquid YPD medium at 30°C in an orbital shaker (Thermo Fisher Scientific, Waltham, MA, USA) at 180 rpm. Yeast cells were washed with sterile phosphate-buffered saline (PBS) twice after 18 h incubation and the final inoculum size was adjusted by hemocytometer to 1 × 106 /mL for biofilm formation and testing in RPMI-1640 medium with L-Glutamine (Cellgro, Manassas, VA, USA) and buffered with morpholinepropanesulfonic acid (MOPS) at 165 mM and pH 6.9 (Thermo-Fisher Scientific, Waltham, MA). For simplicity, this medium is referred to as “RPMI” from now on.
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3

Characterization of Ovarian Cancer Cell Lines

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The high-grade serous ovarian adenocarcinoma cell lines, OVCAR-5 and CAOV3, were used in this study. OVCAR-5 cells were purchased from ATCC (Manasses, VA, USA) and the CAOV3 cell line was obtained from Dr. Giuliano Scarcelli (University of Maryland, College Park) who purchased the cells from ATCC (Manasses, VA, USA). Both cell lines were cultured in a 37 °C, 5% CO2 incubator. Cell lines were propagated for less than 40 passages, and cells were confirmed to be mycoplasma-free using the MycoAlert™ PLUS Mycoplasma Detection Kit (Lonza, Basel, Switzerland). RPMI-1640 medium with L-glutamine (Corning, Corning, MA, USA) containing 10% fetal bovine serum (FBS) (Gibco, Gaithersburg, MD), 100 U/mL penicillin, and 100 μg/mL streptomycin (Corning, Corning, MA, USA) were used to maintain OVCAR-5 cells. DMEM medium (Corning, Corning, MA, USA) supplemented with 10% FBS (Gibco, Gaithersburg, MD, USA) was used to maintain CAOV3 cells.
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4

Proteomic Sample Preparation Protocol

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Empore C18 SPE discs were obtained from 3 M (St. Paul, MN). LC–MS grade solvents (methanol, water, and acetonitrile (ACN)) and formic acid (FA) as well as phosphate-buffered saline (PBS), thioUrea, tris(2-carboxyethyl)phosphine (TCEP), Gibco penicillin–streptomycin (P/S), and HeLa protein digest standard (P/N 88328) were products of Thermo Fisher Scientific (Waltham, MA). Urea, iodoacetamide (IAA), and trypan blue solution were purchased from Sigma-Aldrich (St. Louis, MO). Lysyl endopeptidase (Lys-C) was obtained from Wako Chemicals (Richmond, VA). Trypsin Gold was purchased from Promega (Madison, WI). Ammonium bicarbonate (ABC) was from Honeywell Fluka (Charlotte, NC). The RPMI 1640 medium with l-glutamine was a product of Corning (Corning, NY). Premium fetal bovine serum (FBS) was obtained from R&D Systems (Minneapolis, MN).
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5

TMEM16F Knockout Screening Protocol

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RPMI-1640 medium with L-glutamine and 25 mM HEPES was purchased from Corning (Corning, NY, USA). Antibiotics penicillin and streptomycin were obtained from Gibco (Gaithersburg, MD, USA). Fetal bovine serum (FBS) was from Atlanta Biologicals (Lawrenceville, GA, USA). All other reagents, including a fluorescent nuclear staining dye Hoechst 33342 (Hoechst), a membrane permeabilization indicator Yo-Pro-1 (YP), LentiArray Ion Channel library (catalog No. A42277), positive and negative controls lentiviruses, GeneArt Genomic Cleavage Detection Kit, TMEM16F gRNA and a Cas9 lentivirus were purchased from Thermo Fisher Scientific (Waltham, MA, USA).
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6

Isolation and Culture of Human Macrophages

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To obtain HMDMs, peripheral blood mononuclear cells were isolated from the buffy coats of anonymous, de-identified healthy adult volunteers, with informed consent (New York Blood Center), by using Histopaque-1077 cell separation medium (Sigma-Aldrich), as described previously33 (link). Isolated cells were rinsed and cultured for 7–14 days in RPMI-1640 medium with l-glutamine (10–040; Corning) supplemented with 10% (vol/vol) heat-inactivated FBS (Gibco), 10 U/mL penicillin, and 100 mg/mL streptomycin (Corning), and 10 ng/mL human GM-CSF or M-CSF (PreproTech). Experiments were conducted in naive GM-CSF macrophages, unless stated otherwise. For the indicated experiments, GM-CSF macrophages were incubated for 24 hours with 50 ng/mL LPS and 20 ng/mL recombinant human IFN-γ (PeproTech) to polarize them towards a more pro-inflammatory phenotype, and M-CSF macrophages were incubated with 20 ng/mL recombinant human IL-4 (PeproTech) to polarize them towards a more pro-resolving phenotype. Cells were cultured in a humidified CO2 incubator at 37 °C.
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