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41 protocols using tissue culture dishes

1

HeLa and RPE-1 cell culture and transfection

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All HeLa cells were cultured in MEM Eagle (Sigma, US) complemented with 10% FCS (PAN Biotech, D), 1% Pen/Strep, 1% L-Glutamine, and 1% MEM NEAA (all Gibco, US). They were mycoplasma negative as tested on a trimestral basis using the MycoProbe Mycoplasma Detection Kit CUL001B. RPE-1 cells were grown in complete Dulbeccos MEM (DMEM, Sigma) at 37 °C supplemented with 10% foetal bovine serum (FBS), 2 mM L-Glutamine, penicillin and streptomycin. For transfection, cells were dissociated using trypsin and plated in tissue culture dishes (Falcon, US). After 24 h, the medium was changed and the cells were transfected using Fugene for plasmids (Promega, US) or INTERFERin (Polyplus, F) for silencing with siRNA. The cells were incubated for 24 h to 48 h (for plasmids) or 72 h (for siRNA) before performing experiments. Drug treatments were used at: nocodazole (2 h at 10 µg/mL), Taxol (4 h at 5 µg/mL) both in IM medium (described in 3H-labelling). Taxol treatments for IF were done in complete medium. ML348 and ML349 were used at 10 μM in complete medium for 4 h of pre-treatment followed by the indicated time before harvest. Tunicamycin was used at 10 μg/ml for 4 h in complete medium.
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2

Breast Cancer Cell Culture Protocol

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Two human breast cancer cell lines (MDA-MB-231 and MCF-7) were obtained from American Type Cell Culture (ATCC, Bethesda, MD, USA). The experimental cells were cultured in tissue culture dishes (Cat no: 353003, Falcon, San Jose, CA, USA) in Dulbecco's modified Eagle's medium (DMEM) containing 10% fetal bovine serum (FBS). Cultured cells (5 × 105) were grown at 37℃ in a humidified atmosphere containing 5% CO2.
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3

Biocompatible Fluid Evaporation Dynamics

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FC40 was purchased from Acota. It is bio-inert, and not found in regulatory lists of dangerous organic chemicals (http://www.acota.co.uk/assets/data-centre/msds/3m/3mfc40msds.pdf). If circuits are to be kept for days, extra FC40 should be added when needed, and we give the following data as a rough guide to the replenishment rate. The vapour pressure of FC40 is 432 Pa at 25 °C, so FC40 evaporates relatively slowly compared to water (vapour pressure of 3170 Pa). We find experimentally that the rate of evaporation of FC40 at 25 °C from a 6-cm Petri dish is 90 µl per day with the lid on, and 1.55 ml per day with the lid off. Evaporated FC40 also had no untoward effects on any of many different cell types grown conventionally in the same incubator at the same time over a period of 2 years. All other fluids and materials were from Sigma Aldrich unless otherwise stated. Where indicated, aqueous drops contained water-soluble dyes (e.g., 4 mg/ml Allura Red, 2 mg/ml toluidine blue). Circuits were generally printed on ‘6-cm’ polystyrene tissue-culture dishes (Falcon; 60 × 15 mm style), which have an internal diameter of 5 cm, rectangular flat polystyrene micro-titer plates (127.7 × 85.5 mm; Nunclon from Thermo Fisher Scientific), or glass microscope slides and coverslips. Blunt stainless-steel dispensing needles used for pens generally had widths of 0.4–0.6 mm outer diameter.
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4

Establishing Anoikis-resistant HCC Cells

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The human HCC cell lines Huh-BAT and HepG2 cells were obtained from the Korea Cell Line Bank and cultured in Dulbecco’s modified Eagle’s medium (DMEM) (Life Technologies, Grand Island, NY) containing 10% fetal bovine serum. Cells were incubated at 37°C in a humidified atmosphere containing 5% CO2. For adherent cultures, HCC cells were grown in tissue culture dishes (Falcon, San Jose, CA), and for suspension cultures, cells were grown in dishes coated with 10 mg/ml Poly-hydroxyethylmethacrylate (Poly-HEMA) (Sigma, St. Louis, MO). To select cells that could survive in suspended culture, 1×106 cells were seeded on Poly-HEMA-coated dishes and grown for 28 days. Fresh media were added every 3 days. After 7 days in culture, the cells were harvested and treated with diluted trypsin-EDTA (GibcoBRL, Grand Island, NY) to obtain a single-cell suspension for re-plating or MTS assay. We defined the suspended cells as anoikis-resistant cells; AR Huh-BAT and AR HepG2 cells were derived from the attached Huh-BAT and HepG2 cells, respectively (S1A Appendix in S1 Appendix).
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5

Culturing Glioma Cell Lines: U87ΔEGFR and GL261

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The glioma cell lines U87ΔEGFR and GL261 were seeded on tissue culture dishes (BD Falcon, Franklin Lakes, NJ, USA) and cultured in Dulbecco’s modified Eagle’s medium supplemented with 10% fetal bovine serum, 100 U penicillin, and 0.1 mg/ml of streptomycin. GL261 cells were provided by Dr. A. Natsume, Nagoya University (Nagoya, Japan). NHA cells were purchased from Takara Bio Inc. (Shiga, Japan).
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6

Cell Cycle Analysis of Synchronized Fibroblasts

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Fibroblasts were cultivated on 100 mm by 20 mm tissue culture dishes (Falcon, catalog no. 353003) to ~70 to 80% confluence. For cell synchronization, cells were cultivated for 24 hours with DMEM/1% penicillin/streptomycin and 0.1% fetal calf serum. After 24 hours, the cells were harvested and prepared for cell cycle analyses. The cell pellets were resuspended in 500 μl of 70% ethanol and incubated at 4°C for 24 hours. The cells were centrifuged and resuspended in 200 μl of PBS with propidium iodide (50 μg/ml) (Sigma-Aldrich, catalog no. 25535-16-4) and ribonuclease A (25 μl/ml) (Macherey-Nagel, catalog no. 740505.50) and then incubated in the dark at RT for 30 min. The cell suspension was added to a fluorescence-activated cell sorting (FACS) Falcon and filled with 200 μl of PBS. Ten thousand cells were counted for routine FACS analyses (FACSCalibur).
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7

Culturing Diverse Thyroid Cancer Cell Lines

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All human thyroid cancer cells (TPC1, FTC, SNU373, SNU790, 8505c, and CAL62) were kindly provided by Dr YK Shong, Department of Internal Medicine, Asan Medical Center, College of Medicine University of Ulsan, Korea. The cells were cultured on tissue culture dishes (Falcon, San Jose, CA, USA) in Dulbecco's Modified Eagle's Medium (DMEM) or RPMI-1640 medium containing 10% foetal bovine serum (FBS). For culture, 5 × 105 cells were cultured at 37 °C in a humidified atmosphere containing 5% CO2.
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8

Culturing Rat Olfactory Sensory Neurons

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Cultures were prepared as previously described with some modifications.60 OSNs which were obtained from Sprague-Dawley rats were plated at a density of 2 × 106 cells/ml on tissue culture dishes (Falcon, Lincoln Park, NJ, USA) coated with 25 μg/ml laminin (BD Bioscience, San Diego, CA, USA) in modified Eagle’s medium containing d-valine (MDV, Welgen Inc., Worcester, MA, USA). Cultures are placed in humidified 37 °C incubator receiving 5% CO2. On 2 days in vitro every day thereafter, cells are fed with MDV containing 15% dialyzed fetal bovine serum (Gibco, Rockville, MD, USA), gentamicin, kanamycin, and 2.5 ng/ml nerve growth factor. Two days prior to use, the culture medium is changed to medium without nerve growth factor.
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9

Inhibition of NOX1 in Cell Cultures

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Common reagents were obtained from Roche (Darmstadt, Germany) or Sigma-Aldrich (St Louis, MO, USA). Tissue culture dishes were from Falcon (Lincoln Park, NJ, USA) and serum and culture media were from Invitrogen and Gibco (Life Technologies/Thermo Fisher, Madrid, Spain). Taurocholic acid (TCA) and chenodeoxycholic acid (CDCA) were purchased from Sigma-Aldrich. The selective NADPH oxidase 1 (NOX1) inhibitor ML171 was purchased from Tocris (Biogen Científica, Madrid, Spain). Reagents for electrophoresis were from Bio-Rad (Hercules, CA, USA) and Sigma-Aldrich.
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10

Epigenetic Modulation of Immunoregulatory Genes

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LPS was from Sigma-Aldrich, IFN-γ, IL4, IL10, IL13 were from PeproTech. 5-Aza-2′-deoxycytidine (5-Aza-C) was from Sigma-Aldrich. Antibodies were from Santa Cruz Biotech, Ambion, Millipore, Abcam and Cell Signaling Tech (see Table 1). PCR probes were from Invitrogen. Fluorescent secondary antibodies were from Molecular Probes. Tissue culture dishes were from Falcon and tissue culture media were from Gibco-Invitrogen.
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