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Sodium bicarbonate

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Sodium bicarbonate is a white, crystalline powder with the chemical formula NaHCO3. It is a common laboratory reagent used for various applications in biochemistry, cell culture, and analytical chemistry. Sodium bicarbonate acts as a buffer, maintaining pH levels in solutions and neutralizing acidic substances.

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8 protocols using sodium bicarbonate

1

Standardized Cell Culture Maintenance

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Cell cultures were maintained under standard conditions (37 °C; 5% pCO2; 95% humidity) according to the manufacturer guidelines. Cells were cultured in Iscove's Modified Dulbecco's Medium (IMDM) with 4-mML-glutamine adjusted to 1.5 g/L sodium bicarbonate (ATCC; Manassas, VA, USA) and supplemented with 0.05 mM 2-mercaptoethanol (Sigma- Aldrich Corp., St. Louis, MO, USA), 0.1 mM hypoxanthine and 0.016 mM thymidine (90%) (ATCC; Manassas, VA, USA), fetal bovine serum (10%) (ATCC; Manassas, VA, USA) and 1% penicillin/streptomycin (P/S) solution (ScienCell Research Laboratories, advertising San Diego, CA, USA). Cells were divided when the culture reached 90–95% maturity.
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2

3D Collagen Culture Formation Protocol

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A 3D Collagen Culture Kit containing Collagen I solution, Medium 199, and Neutralization solution for the formation of collagen gels, was used following the manufacturers recommendations (Cat. No. ECM765, MilliporeSigma, Burlington, MA). Purified Collagen Type III (Bovine, Cat. No. CC078) were obtained from ThermoFisher Scientific (Waltham, MA). For cell culture in the collagen gels, 1% Penicillin-Streptomycin and EmbryoMax L-Glutamine Solution (100X) were obtained from Millipore. Fetal Bovine Serum was obtained from Gibco (ThermoFisher Scientific). Dulbecco’s Modified Eagle’s Medium/Nutrient Mixture F-12 Ham with 15mM HEPES and sodium bicarbonate was obtained from ATCC (Manassas, VA), and 0.25% trypsin-EDTA was obtained from ThermoFisher Scientific. Cell Trace Violet (CTV), proliferation kit was obtained from Invitrogen (Carlsbad, CA). 4% paraformaldehyde was obtained from Sigma-Aldrich (St. Louis, MO).
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3

Astrocyte Lineage Calcium Signaling

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We searched for an astrocyte cell lineage that expresses teneurin gene expression in order to adopt it in future in vitro assays. For this, C8D1A mouse cerebellar immortalized astrocytes (#CRL-2541, ATCC, VA, USA) were used. In addition, based on the fact that TCAP-1 is a bioactive peptide in neurons supported by in vitro and in vivo studies, we tested whether TCAP-1 is able to change calcium signaling in this cell lineage.
This astrocytes cell lineage was cultured in Dulbecco's Modified Eagle's Medium (DMEM) containing 4,500 mg/ L glucose content, 4 mM L-glutamine, 1 mM sodium pyruvate, 1,500 mg/ L sodium bicarbonate (#30-2002, ATCC, VA, USA) with 10% fetal bovine serum (FBS, #12483020, Thermo Fisher Scientific, MA, USA), 100 μg/ mL penicillin and 100 μg/ mL streptomycin (#15140-122, Thermo Fisher Scientific, VA, USA) added to the medium. Astrocytes were incubated at 37°C, 5% CO2 and cells were maintained at 70–80% confluency.
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4

In Vitro Analysis of Dental Cements

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All of the in vitro analyses were performed in an experimental model using a commercially available monocyte/macrophage peripheral blood cell line—SC (ATCC CRL-9855) (ATCC; Manassas, VA, USA). Cell cultures were kept under standard conditions (37 °C; 5% pCO2; 95% humidity) according to the guidelines provided by the manufacturer. Cells were cultured in Iscove’s Modified Dulbecco’s Medium (IMDM) with 4-mML-glutamine adjusted to contain 1.5 g/L sodium bicarbonate (ATCC; Manassas, VA, USA) and supplemented with 0.05-mM 2-mercaptoethanol (Sigma-Aldrich Corp., St. Louis, MO, USA), 0.1-mM hypoxanthine and 0.016-mM thymidine (90%) (ATCC; Manassas, VA, USA), fetal bovine serum (10%) (ATCC; Manassas, VA, USA) and 1% penicillin/streptomycin solution (P/S) (ScienCell Research Laboratories, San Diego ad, CA, USA). Each cell culture was split when it reached 90–95% confluency. All of the tested cements were mixed according to manufacturer’s instructions and then cured in sterile hemi-sphere molds, r = 3.75 mm (surface area 1.33 cm2, volume of 140 μL). Immediately after reaching the setting time as provided by the manufacturer, the specimens were placed in Eppendorf tubes containing 1 mL of cell culture medium and were incubated for 24 and 48 h at 37 °C. The eluates were centrifugated for 5 min (2000 rpm) and then used for further analysis [33 (link)].
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5

Cell Culture Protocols for U-937 and 293T

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The U-937 human monocytic cell line (American Type Culture Collection. ATCC, CRL-1593.2) was grown in Roswell Park Memorial Institute medium (RPMI)-1640 media (Cellgro). Media was supplemented with 10% heat-inactivated fetal bovine serum (FBS; Hyclone), antibiotics, (penicillin, 100 U/mL, and streptomycin, 100 µg/mL; Cellgro), glucose (4.5 g/L, Cellgro), sodium pyruvate (1 mM, Cellgro), and HEPES (10 mM, Cellgro). 293T cells were maintained in Dulbecco’s Modified Eagle Medium (ATCC) supplemented with FBS (10%), glucose solution (10%), sodium bicarbonate (2%), and antibiotics (penicillin and streptomycin at 40 µg/mL each). The cells were maintained at 37°C with 5% CO2.
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6

Endothelial Cell Culture Protocol

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The materials were sterilized by UV light for 0.5 h from both sides. The samples were inserted into polystyrene 24-well cell culture plates (TPP, Trasadingen, Switzerland) and were seeded with endothelial cells originating from bovine pulmonary artery (line CPAE ATCC CCL-209, Rockville, MA, USA) in a minimum essential Eagle medium (E-MEM) supplemented with 2 mM l-glutamine, 1.0 mM sodium pyruvate, 0.1 mM non-essential aminoacids and 1.5 g/L sodium bicarbonate (all chemicals from Sigma). In order to avoid potential adsorption of serum-derived proteins and masking the oligopeptidic ligands, fetal bovine serum (Sebak GmbH, Aidenbach, Germany) was added to the medium 5 h after cell seeding to a final concentration of 20 % in each well [23 (link)]. Each well contained 30,000 cells and 1.5 ml of the medium. The cells were cultured in a humidified atmosphere containing 5 % CO2 in the air.
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7

A549 Cell Culture and Bleomycin Treatment

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The cell line A549 was purchased from the Shanghai Institute of Cell Biology, China. A549 cells were grown in DMEM containing 1.5 mg/ml of sodium bicarbonate (ATCC, Manassas, VA) and 10% calf serum (N-10) in a 5% CO2 incubator. Cells were seeded at 0.7 × 105 cells per well in six-well plates, and the medium was replaced with 2 ml serum-free medium with or without 20 μg/mL BLM for 48 h.
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8

Monocyte/Macrophage Cell Line Analysis

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All in vitro analyses were performed with a commercially available monocyte/macrophage peripheral blood cell line—SC (ATCC CRL-9855) (ATCC; Manassas, VA, USA). Cells were maintained under standard conditions (37 °C; 5% pCO2; 95% humidity) according to the manufacturer’s guidelines. Cells were cultured in Iscove’s Modified Dulbecco’s Medium (IMDM) with 4-mM l-glutamine adjusted to contain 1.5 g/L sodium bicarbonate (ATCC; Manassas, VA, USA) and supplemented with 0.05-mM 2-mercaptoethanol (Sigma-Aldrich Corp., St. Louis, MO, USA), 0.1-mM hypoxanthine and 0.016-mM thymidine (90%) (ATCC; Manassas, VA, USA), fetal bovine serum (10%) (ATCC; Manassas, VA, USA) and 1% penicillin/streptomycin solution (P/S) (ScienCell Research Laboratories, San Diego ad, CA, USA). Cells were split every 2–3 days, when the cell culture reached 90–95% confluency. A total of 50 µL of each investigated UDA was placed in Eppendorf tubes and polymerized according to the manufacturer’s instructions (LED lamp intensity over 1000 mw/cm2, The CURE-TC-01, Spring Health Products, PA, USA). Afterwards, 1 mL of cell culture medium was added and the Eppendorfs were incubated for 24 h at 37 °C. The eluates obtained after centrifugation for 5 min at the speed of 2000 rpm were used for further experiments.
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