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95 protocols using a5955

1

Characterization of HGSOC Cell Lines

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The PEO1 (#10032308) and PEO4 (#10032309) cell lines were purchased from the European Collection of Authenticated Cell Cultures, England. The OVCAR3 (#HTB-161) cell line was purchased from American Type Culture Collection, England. PEO1, PEO4 and OVCAR3 cell lines have previously been phenotypically and genotypically characterised as representative of HGSOC [36 (link),37 ]. For routine culture, PEO1 and PEO4 cells were maintained in RPMI 1640 growth medium (#31870, Thermo Fisher Scientific, UK), supplemented with 10% foetal bovine serum (FBS) (#FB-1550, Biosera, USA), 2 mM glutamine (#25030081, Thermo Fisher Scientific, UK), 1% antibacterial antimycotic solution (ABAM) (#A5955, Merck, UK). For routine culture, OVCAR3 cells were maintained in RPMI 1640 growth medium supplemented with 20% FBS (#FB-1550, Biosera, USA), 2 mM glutamine, 0.1% insulin (#I0516, Merck) and 1% ABAM (#A5955, Merck). All cells were cultured in TC treated Corning® T-25 (#CLS430639, Merck), T-75 (#CLS430641U, Merck), or T-175 (#CLS431080, Merck) cell culture flasks and incubated at 37 °C in a humidified 5% CO2 chamber. Growth medium was replaced every 2–3 days and cells were sub-cultured, using Accutase® cell detachment solution (#SCR005, Sigma–Aldrich), to ensure 70–80% confluency.
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2

Breast Cancer and Fibrosarcoma Cell Culture

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The 4T1 (ATCC CRL-2539) and E0771 (94A001,
CH3 BioSystems) breast adenocarcinoma cell lines were maintained in
Dulbecco’s modified Eagle medium (DMEM, LM-D1109, Biosera)
and Roswell Park Memorial Institute medium (RPMI-1640, LM-R1637, Biosera),
respectively, and supplemented with 10% fetal bovine serum (FBS, FB-1001H,
Biosera) and 1% antibiotics (A5955, Sigma). Cell lines were preserved
in 5% CO2 at 37 °C. MCA205 fibrosarcoma cells (SCC173,
Millipore) were cultured in RPMI-1640 (LM-R1637, Biosera) containing
2 mM l-glutamine (TMS-002-C, Sigma-Aldrich), 1 mM sodium
pyruvate (TMS-005-C, Sigma-Aldrich), 10% FBS (FB-1001H, Biosera),
1× nonessential amino acids (TMS-001-C, Sigma-Aldrich), 1% antibiotics
(A5955, Sigma), and 1× β-mercaptoethanol (ES-007-E, Sigma).
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3

Murine Breast Cancer and Fibrosarcoma Cell Culture

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4T1 (ATCC CRL-2539) and E0771 (94A001, CH3 BioSystems) mouse breast adenocarcinoma cell lines were purchased form ATCC and CH3 BioSystems, respectively. The cells were maintained at 37 °C/ 5% CO2 in Roswell Park Memorial Institute medium (RPMI-1640, LM-R1637, biosera) supplemented with 10% fetal bovine serum (FBS, FB-1001H, biosera) and 1% antibiotics (A5955, Sigma). The MCA205, mouse fibrosarcoma cell line was purchased from Millipore (SCC173, Millipore) and cultured in expansion medium consisting of RPMI-1640 (LM-R1637, biosera) supplemented with 2 mM L-glutamine (TMS-002-C, Sigma), 1 mM sodium pyruvate (TMS-005-C, Sigma), 10 % fetal bovine serum (FBS, FB-1001H, biosera), 1x non-essential amino acids (TMS-001-C, Sigma), 1% antibiotics (A5955, Sigma) and 1x β-mercaptoethanol (ES-007-E, Sigma). MCA205 cells were also maintained at 37 °C/ 5 % CO2.
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4

Culturing HEK293 and Uveal Melanoma Cells

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HEK293 cells were cultured in Dulbecco's modified Eagle's medium (D6429; Sigma–Aldrich, Inc) containing 10% fetal bovine serum (F2442; Sigma—ldrich, Inc), 1× antibiotic/antimycotic solution (A5955; Sigma–Aldrich, Inc), and 1× Plasmocin prophylactic (ant-mpp; InvivoGen). HEK293 Gαq/11 KO cells were cultured using the same conditions described previously and were a kind gift from Dr Asuka Inoue (41 (link)). UM cells (92.1, OMM1.3) were cultured in RPMI1640 (R8758; Sigma–Aldrich, Inc) containing 10% fetal bovine serum (F2442; Sigma–Aldrich, Inc), 1× antibiotic/antimycotic solution (A5955; Sigma–Aldrich, Inc), and 1× Plasmocin prophylactic (ant-mpp; InvivoGen). All cell lines were routinely tested free of mycoplasma contamination. VS-4718 (S7653), BYL719 (S2814), TGX221 (S1169), CAL101 (S2226), and BKM120 (S2247) were purchased from SelleckChem. FR900359 was prepared in the laboratory of Dr Evi Kostenis. CNO (4936) was purchased from Tocris, Inc EGF (E9644) was purchased from Sigma–Aldrich, Inc. All compounds were used at concentrations indicated in figure legends.
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5

Canine Luteal Cell Isolation and Culture

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Cell culture was performed to verify the effects of ERa and ERb blockers on canine luteal cells derived from different timepoints in diestrus. Canine luteal cells were isolated from twelve healthy mongrel female dogs at early (day 20 p.o.), mid (day 40 p.o.), and late diestrus (day 60 p.o.; n = 4 animals/group). After washing with fresh phosphate buffered saline (PBS) containing 1% antibiotic-antimycotic solution (A5955, Sigma-Aldrich), CLs were minced. Fragments were transferred to 1 ml Dulbecco's modified Eagle's medium (DMEM) supplemented with 5% fetal bovine serum (FBS; Sigma-Aldrich), 1% L-glutamine (Sigma-Aldrich.), 20 mM HEPES (Sigma-Aldrich), 1% antibiotic-antimycotic solution (A5955, Sigma-Aldrich), and 1 mg/ml collagenase type 1 (C0130; Sigma-Aldrich). Samples were incubated for 1 h with shaking (60 shakes/min) at 37°C. The suspension was centrifuged at 200 × g for 10 min, re-suspended in DMEM, and filtered through a cell strainer (70 μm; BD Falcon; BD Biosciences, Durham, NC, USA). The filtrate was centrifuged at 200×g for 10 min, re-suspended in DMEM (v/v) for 10 min, centrifuged at 200 × g for 10 min, and re-suspended in DMEM. Subsequently, cells were seeded in 24-well plates and incubated (5% CO2) at 37°C until 90% confluence.
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6

Optimizing Cell Compression Time in POR Scaffolds

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To assess the optimal compression time in the POR scaffold, PDLFs were cultured for 4, 24, 48, and 72 h either on conventional 24-well cell culture plates (662-160, Greiner Bio-One GmbH, Frickenhausen, Germany) or on 24-well INO matrix plates (Porous POR PCL Morphology Single Type Plate, 811004-24, Biozym Scientific GmbH, Hessisch Oldendorf, Germany) in DMEM High Glucose (D5671, Merck KGaA, Darmstadt, Germany) supplemented with 10% FBS (P30-3302, PAN-Biotech GmbH, Aidenbach, Germany); 1% antibiotic/antimycotic (A5955, Merck KGaA, Darmstadt, Germany); 1% L-glutamine (G7513, Merck KGaA, Darmstadt, Germany), and 100 µM ascorbic acid (A8960, Merck KGaA, Darmstadt, Germany). After 24 h of preincubation, the cells were either left untreated or compressed with ZnO2 plates (2 g/cm2). Depending on the periods to be investigated, the plates were left on the cells for 4, 24, 48, or 72 h. After the corresponding incubation time, RNA was isolated and analysed with RT–qPCR. The supernatant was used for the LDH assay (Supplemental Materials).
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7

Isolation and Characterization of Primary Human Periodontal Ligament Fibroblasts

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Primary human PDLFs were isolated from the periodontal connective tissue of extracted human teeth of healthy donors that were free of decay and periodontal disease and were extracted for medical reasons. Tissue samples were cultivated in six-well cell culture plates (353046, Corning GmbH, Kaiserslautern, Germany) (37 °C, 5% CO2, 100% H2O) in complete media (DMEM High Glucose, D5671, Merck KGaA, Darmstadt, Germany) with 10% FBS (P30-3302, PAN-Biotech GmbH, Aidenbach, Germany); 1% antibiotic/antimycotic (A5955, Merck KGaA, Darmstadt, Germany); 1% L-glutamine (G7513, Merck KGaA, Darmstadt, Germany) and 100 µM ascorbic acid (A8960, Merck KGaA, Darmstadt, Germany) until proliferative outgrowth of adherently growing fibroblasts was observed. Cells were characterised by human PDLF-specific marker genes and a spindle-shaped morphology, as reported previously [49 (link),56 (link)]. For the experiments, human PDLFs from the third to fifth passage were pooled from six patients (male: 3; female: 3; age: 17–27 years).
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8

Optimizing Compression Force for Periodontal Regeneration

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To assess the optimal compression force in the POR scaffold, PDLFs were seeded in DMEM High Glucose (D5671, Merck KGaA, Darmstadt, Germany) supplemented with 10% FBS (P30-3302, PAN-Biotech GmbH, Aidenbach, Germany); 1% antibiotic/antimycotic (A5955, Merck KGaA, Darmstadt, Germany); 1% L-glutamine (G7513, Merck KGaA, Darmstadt, Germany), and 100 µM ascorbic acid (A8960, Merck KGaA, Darmstadt, Germany) either on conventional 24-well cell culture plates (662-160, Greiner Bio-One GmbH, Frickenhausen, Germany) or on 24-well INOMatrix plates (Porous POR PCL Morphology Single Type Plate, 811004-24, Biozym Scientific GmbH, Hessisch Oldendorf, Germany) and loaded with ZnO2 plates of different weights (2 g/cm2, 4 g/cm2, 6 g/cm2) (Figure 5c), for 48 h after 24 h of preincubation, under cell culture conditions. After the compression period, RNA was isolated and analysed with RT–qPCR. The supernatant was used for the LDH assay (Supplemental Materials).
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9

Establishment and Manipulation of Clonal Cell Lines

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hTERT RPE-1 and HCT-116 cell lines (ATCC CRL-4000 and CCL-247 respectively) were grown in Dulbecco's modified Eagle's medium (DMEM) supplemented with 10% fetal bovine serum (A3160402, Thermo Scientific) and antibiotic antimycotic solution (A5955, Merck) under standard conditions. To quantify long term cellular growth, cells were counted at each passage (every three days) and each time re-seeded at a fixed density. Cumulative cell count was then calculated for each cell line and plotted. To generate clonal populations, cells were resuspended with trypsin in complete medium, centrifuged and resuspended at a concentration of 5–10 million cells in 0.5 ml of PBS supplemented with 5% FBS. Finally, single cells were sorted in 96 well plates using a FACS Melody™ Cell Sorter (BD Biosciences) and subsequently amplified until having enough biological material for further analysis. Brightfield photos were generated with a ZOE Fluorescent Cell Imager (BioRad). To silence MLH1, cells were transfected with smart pool siRNA (Dharmacon) directed against MLH1 (L-003906-00-0005) or a non-targeting pool (D-001810-10-05) as control using Lipofectamin™ RNAiMax (13778075, Thermo Fisher) in six-well plates.
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10

Primary culture of human gingival fibroblasts

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Primary cultures of HGF were established through adaptation of previous works [20 ,21 (link)]. The biopsies were transported to the laboratory in phosphate-buffered saline (PBS; in mM: 137 NaCl, 2.7 KCl, 10 Na2HPO4, and 1.8 KH2PO4 [pH 7.4]), supplemented with 1% penicillin/streptomycin/amphotericin B (A-5955, Sigma Aldrich®, Israel).
The explants were scraped to remove any epithelial tissue, cut into pieces, and submitted to digestion by incubation with 2% collagenase type I (Affymetrix® 13820, Cleaveland, OH, USA) at 37 °C for 45 min. Subsequently, collagenase was carefully replaced by a solution of 0.25% trypsin (Gibco® 25200056, Thermo Fisher Scientific, Paisley, Scotland), and digestion continued for 15 min. Afterwards, the fragments were distributed through a petri dish, and a few drops of DMEM (Dulbecco’s Modified Eagle’s Medium, D-5648, Sigma Aldrich®, Saint Louis, MO, USA), supplemented with 10% fetal bovine serum (FBS, Sigma Aldrich®, F7524, Brazil), and 1% penicillin/streptomycin/amphotericin B were added. The cultures were maintained at 37 °C in a humidified incubator with 5% CO2 and filled with a medium after 24 h. Cultures were monitored, and the medium was replaced every three days. Seventh to eighth passages HGF were used in this study.
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