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33 protocols using 4 6 diamidino 2 phenylindole (dapi)

1

MeHg Inhibits Neural Progenitor Proliferation

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ihNPCs were seeded at a density of 2.5 × 104 per well in laminin-coated 96-well plates (Corning, NY, USA). After 24 h incubation, the culture medium was changed and MeHg was then added at the concentration ranging from 0 nM, 10 nM and 50 nM, respectively, and cultured for 24 h. The effect of MeHg on cell proliferation was measured using Cell-Light EdU Apollo Kit (RiboBio, Guanzhou, China), as described previously [45 (link)]. The results were expressed as EdU+ cell numbers per 100 4′,6-diamidino-2-phenylindole (DAPI) (RiboBio, Guanzhou, China) stained cells.
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2

Evaluating Cell Proliferation via LINC01137

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A549 and H1299 cells were simultaneously transfected and seeded into 6‐well plates with 10% phosphate‐buffered saline. After 14 days, colony cells were stained with 1% crystal violet for 20–30 min, and then counted. After transfection of NC LINC01137 and shRNA‐LINC01137 into the A549 and H1299 cells, respectively, the EdU assay and 4′,6‐diamidino‐2‐phenylindole (DAPI; RiboBio) were used to investigate cell proliferation, following the manufacture's protocols. The nuclei double‐stained with EdU and DAPI were calculated.
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3

Quantifying circSHKBP1 and miR-582-3p via FISH

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Cy3-labeled specific probe to circSHKBP1 and FAM-labeled specific probe to miR-582-3p were designed and synthesized by RiboBio and the signals was detected by the FISH Kit (RiboBio) according to the manufacturer’s instructions. Cells were grown to the exponential phase and were 40–50% confluent at the time of fixation. After permeabilization (1 × PBS/0.5% Triton X-100), the cells were hybridized in hybridization buffer with specific probes to circSHKBP1, U6 and 18S at 37 °C overnight. The hybridization buffer was then gradually washed off with 4× SSC (including 0.1% Tween-20), 2× SSC and 1× SSC at 42 °C. Nuclei were counterstained with 4,6-diamidino-2-phenylindole (DAPI) (RiboBio). Confocal images were captured using Zeiss AIM software and a Zeiss LSM 700 confocal microscope system (Carl Zeiss Jena, Oberkochen, Germany).
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4

Proliferation Capacity of CPM Assessed

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The proliferation capacity of CPM was detected by ethynyl-deoxyuridine staining, the CCK-8 cell viability assay and flow cytometry.
For ethynyl-deoxyuridine staining, CPM were treated with 50 μM ethynyl-deoxyuridine (Ribobio, Guangzhou, China) at 36 h post-transfection according to the manufacturer’s protocol and incubated for 2 h at 37 °C in a 5% CO2 incubator. The CPM nuclei were stained with 5 μg/mL 4′,6-diamidino-2-phenylindole (DAPI, Ribobio) for 5 min and washed three times with PBS. Cells were observed under a fluorescence microscope (Nikon, Tokyo, Japan).
For the CCK-8 assay, at 12, 24, 36, and 48 h post-transfection, 10 μL of CCK-8 reagent were added to each well (eight wells per group) to detect the absorbance at 450 nm after incubation for 2 h at 37 °C according to the manufacturer’s instructions.
For flow cytometry, after 48 h, the transfected cells were washed twice in a cold phosphate-buffered saline solution and collected in a 1.5 mL centrifuge tube. The cells were then suspended in 500 μL of a propidium iodide (Sigma, MO, USA) solution with 10 μL RNase A (Sigma) at 37 °C for 30 min. The cell cycle phase was detected using a flow cytometer (Becton Dickinson, FACSCa-libur, Franklin, GA, USA), and the proportion of cells in each cell cycle phase was obtained.
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5

Quantifying Cell Proliferation via EdU Assay

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An EdU assay was performed using the Cell Light EdU DNA imaging kit (Guangzhou RiboBio Co., Ltd., Guangzhou China) to measure cell proliferation. 48 hours after transfection, cells were seeded in 96-well plates and exposed to 25 mM EdU for 2 h at 37°C, and were then fixed in 4% paraformaldehyde. Following permeabilization with 0.5% Triton X-100, the 16 Apollo reaction cocktail (Guangzhou RiboBio Co., Ltd., Guangzhou China) was added and the cells were incubated for 30 min. Subsequently, the DNA of the cells was stained with 4',6-diamidino-2-phenylindole (DAPI) (Guangzhou RiboBio Co., Ltd., Guangzhou China) for 15 min and visualized under a fluorescent microscope (IX81; Olympus Corporation, Tokyo, Japan). The cell count was analyzed.
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6

Quantifying Cell Proliferation with EdU Staining

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Cell proliferation was assessed according to the protocol using a 5‐ethynyl‐2′‐deoxyuridine (EdU) staining kit (RiboBio). H1299 and A549 cells were cultured in a 96‐well plate for 24 h and incubated with 50 μM EdU solution for another 2 h. After being fixed with 4% paraformaldehyde for 30 min at room temperature, the cell nuclear were then stained with 4′,6‐diamidino‐2‐phenylindole (DAPI: RiboBio) for 30 min in the dark place. Cell proliferation ability was evaluated by a microscope (Leica).
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7

Cell Viability and Proliferation Assays

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A cell viability assay kit was performed using the Cell Proliferation Reagent Kit I (3‐[4,5‐Dimethylthiazol‐2‐yl]‐2,5‐diphenyltetrazolium bromide, MTT) (Roche Applied Science, Indianapolis, IN, USA). The cells were seeded in 96‐well plates at 2×103 cells/well. After transfection for 24 hours, cell viability was determined every 24 hours following the manufacturer's protocol. Each assay was replicated three times. A 5‐ethynyl‐2’‐deoxyuridine (EdU) cell proliferation detection kit (RIBOBIO, Guangzhou, China) was used to detect the cell proliferation ability. The cells were cultured in 24‐well plates at 5×103 cells/well. After 48 hours of transfection, 50 mmol/L EdU labeling medium was added and then incubated for 2 hours at 37°C and 5% CO2. Using 4% paraformaldehyde and 0.5% Triton X‐100, the cells were stained with an anti‐EdU working solution, and the cell nuclei were labeled with 4’,6‐diamidino‐2‐phenylindole (DAPI) (RIBOBIO, Guangzhou, China). The percentage of EdU‐positive cells was analyzed using fluorescence microscopy (Carl Zeiss, Jena, Germany). Each assay was replicated three times.
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8

Localization of lncRNA linc01614 by FISH

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A fluorescent in situ hybridization kit (RiboBio, Inc.) was used to conduct the FISH assay. Briefly, the Panc-1 and SW1990 cells were fixed using 4% paraformaldehyde (Biosharp, Inc.) and washed three times using phosphate-buffered saline (PBS). The cells were then incubated with Cy3-labeled linc01614 RNA probes (RiboBio, Inc.) in a hybridization buffer overnight at 37°C. The nucleus of cells was stained with 4′,6-diamidino-2-phenylindole (DAPI) (RiboBio, Inc.) for 10 min at room temperature. The stainings were observed using a confocal microscope (Olympus FV1200; Olympus Corporation).
For PC tissues, lncRNA FISH on paraffin tissue sections with linc01614 probes was also performed using the same hybridization kit (RiboBio, Inc.). The sections were deparaffinized and rehydrated using xylene and a graded alcohol solution series. Following treatment with protease K (Biosharp, Inc.), the sections were incubated with Cy3-labeled linc01614 probes in hybridization buffer at 37°C overnight. Cell nuclei were stained with DAPI. Images were acquired with the use of an Olympus fluorescence microscope (Olympus IX71, Olympus Corporation).
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9

Fluorescent In Situ Hybridization for ZFAS1 Expression

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In situ hybridization was used with a Fluorescent In Situ Hybridization Kit (RiboBio, China). Briefly, cells were plated on cover slips in a 24-well plate, and were fixed with 4% paraformaldehyde after three washes using 1 × PBS. Then cells were added 1 ml cold PBS containing 0.5% Triton X-100 at 4 ℃ for 5 min, washed with 1 × PBS three times, and prehybridizated at 37 ℃ for 0.5 h before hybridization. An anti-ZFAS1, anti-18S and anti-U6 oligodeoxynucleotide probe was performed in the hybridization solution at 37 ℃ overnight. Cells were counterstained with 4′,6-diamidino-2-phenylindole (DAPI, RiboBio, China) the following day and images were captured by fluorescence microscope (Nikon, Japan).
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10

Localization of lncRNA via RNA-FISH

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The second-generation BMSCs were inoculated in the laser confocal culture dish, and when the degree of cell fusion reached 60%–70%, the cells were fixed, made transparent and blocked according to the instructions of the RNA-FISH detection kit (RiboBio, Guangzhou, China). Then, LncRNA Fish Probe Mix (RiboBio) was used for light-avoiding hybridization overnight at 37 °C; 18 S and U6 (RiboBio) were used as positive controls for the cytoplasm and nucleus, respectively. The nucleus was labeled with DAPI (RiboBio). PBS was used to wash the cells. Anti-fluorescence quenching agent (Solarbio) was then added, and the fluorescence was observed with a laser confocal microscope.
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