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96 protocols using c0121

1

Cell Proliferation and Colony Formation Assay

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For cell proliferation assay, control and transfected tumor cells were seeded into 96-well plates in a density of 1500 cells/well. For every 24 h, replicate wells were added 10% CCK8 (MA0218-3, meilunbio, China) and maintained at 37 °C for 2 h. Subsequently the absorbance was measured at 450 nm for each well.
For colony formation assay, 500 cells per well were seeded into six-well plates and cultured in the medium with 10% FBS in the incubator for 2 weeks. Then, the cells were fixed with 4% paraformaldehyde (AR-0211, FuDing, China) and afterwards stained with crystal violet (C0121, Beyotime, China). Finally, the colonies were measured and counted.
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2

Macrophage Migration Assay with Tumor Cells

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Briefly, 1 × 105 THP-1 cells were seeded into the upper chamber (3422, Corning, New York, New York) and were then induced to differentiate into macrophages by PMA as described in the ‘Cell lines and transfection’ section. Then, the medium in the lower chamber was replaced with conditioned medium collected from tumor cells, and the medium in the upper chamber was replaced with RPMI-1640. After 24 h, the Transwell membrane was fixed with methanol and stained with crystal violet (C0121, Beyotime, Suzhou, China). To count the cells that had migrated, a microscope (Zeiss, Oberkochen, Germany) was used to image the fields of view. For PBMCs, 1 × 105 PBMCs in 1640 containing 1% FBS were placed in the upper chamber (MCMP24H48, Millipore, Darmstadt, Germany), and the lower chamber was filled with conditioned media from tumor cells. After 3-4 h, cells that migrated into the lower chamber were counted using a cell counting chamber. For CXCL10 and CCL5 neutralizing experiments, anti-CXCL10 antibody (2.0 μg/ml) and anti-CCL5 antibody (2.0 μg/ml) were added to the collected conditioned medium 30 min before the migration assay started.
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Transwell Migration and Invasion Assay

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Cell migration and invasion capacities were detected using transwell chambers (3422, Corning). Cells in serum-free medium were seeded into the upper chamber of a 24-transwell plate with 8 μm pore filter. MEM contained 20% FBS was added in the lower chambers. After treatment for 48 h, the cells that moved through the underside of the membrane filter were fixed with 4% paraformaldehyde (PFA, BL539A, Biosharp) and stained using 0.1% crystal violet (C0121, Beyotime). Then, images were photographed under an inverted microscope (Olympus), and the number of migrated cells stained were counted blindly in five random fields.
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Cell Proliferation and Colony Formation Assay

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Cells were inoculated in 96-well plates (FPT011, Beyotime, China) at a 5 × 10 3 cells/well. Cells (2 × 10 3 cells/well) were cultured at 5% CO 2 at 37°C. After transfecting negative control (NC) miRNA and lncRNA, PCAT6 and miR-15a inhibitor, the 10 ul CCK-8 reagent (C0038, Beyotime, China) was added to the medium. The plates were incubated 1 h in the dark at 5% CO 2 , 37°C. The absorbance was quantitated by microplate reader (Bio-Rad, Sunnyvale, CA, US) at 450 nm.
Colony formation assay 500 viable cells were inoculated in 6-well plates (Beyotime, China) for 24 h. The cells were washed with phosphate buffered saline (PBS) and cultured in complete medium at 5% CO 2 at 37°C for 10 days. The resulting colonies were fixed with 10% formalin (G2161, Solarbio, Beijing, China) and stained with 0.1% crystal violet (C0121, Beyotime, China) for 10 min. Each treatment run triplicate. Colonies were counted and compared to untreated cells (a clone was regarded as > 50 cells).
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5

Colony Formation Assay for NB Cells

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For colony formation assays, NB cells were cultivated in six‐well plates with 3.0 × 103 cells/well. After 14‐day incubation, the plates were washed with phosphate‐buffered solution (PBS) twice, fixed by 4% paraformaldehyde fix solution (BL539A; Biosharp, China) for 15 min and stained with 0.1% crystal violet staining solution (C0121; Beyotime, China) for 10 min. Then, we washed off the excess crystal violet solution, dried the six‐well plates, and photographed them.
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6

Evaluating Colorectal Cancer Cell Viability

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Cell viability was determined using MTT assay. Briefly, 1*103 colorectal cells were seeded into 96-well plates per well with 5 repetitions of each group. After 12 h of cell attachment, 10 µL Cell Counting Kit-8 (CK04, DOJINDO, Kumamoto, Japan) reagent (Cell Counting Kit, Yeasen) was added to 100 µL cell culture medium without FBS per well. Then, the plate was placed in an incubator at 37 °C for 2 h in the dark. Finally, the absorbance value of the whole plate was measured at 450 nm using a Biotek system. The curves of cell proliferation were plotted each day. As for colony-formation assays, 500 CRC cells were seeded into 6-well plates, and the colonies formed were counted 1 week later.
Transwell assays were performed by seeding 4*104–8*104 cells into the upper chamber (CLS3464, Corning Costar, Corning, NY, USA) with no FBS supplementation, while 500 µL DMEM with 10% FBS was added to the lower chamber. After 72 h of culture, migrated cells were fixed with 4% paraformaldehyde (G1101, Servicebio, Wuhan, Hubei, China), stained with crystal violet staining solution (C0121, Beyotime, Shanghai, China), and counted under a microscope.
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Colony Formation Assay for KPC and PANC1 Cells

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KPC or PANC1 (1 × 103 cells per well) were seeded in the six-well plates in triplicate. After overnight incubation, cells were treated with various concentrations of TH-Z835 or vehicle (DMSO), and allowed to grow for 10 to 14 days, during which the medium was changed every 3 days. After 10−14 days, cells were fixed by 4% paraformaldehyde (Leagene, DF0135), and cell colonies were stained by crystal violet solution (Beyotime, C0121) for 30 min. After washing with water, 10% methanol-acetic acid solution was added to dissolve the stained cell precipitation, and the absorbance was measured at 590 nm.
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8

Cultivation and Staining of GC Cells

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The cells of GC were cultivated in a 12-well plate, with each well containing a density of 1000 cells, for a period of 14 days. Subsequently, the culture supernatant was extracted, and the cells were immobilized by employing a 4% paraformaldehyde solution. Following that, the cells that had been immobilized were treated with a crystal violet staining solution (Beyotime, #C0121), and photographs were taken using an inverted microscope.
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9

Colony Formation Assay Protocol

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The cells were made into a cell suspension, and seeded in a six-well plate at 1×103 cells/well at 37℃ for 2 weeks. The colonies were fixed with methanol for 15min and then stained with 0.4% crystal violet (C0121, Beyotime Biotechnology; Shanghai, China). The number of cell colonies was counted by the microscope (TS100, Nikon, Japan) and analyzed.
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10

Cell Proliferation Assay Protocol

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MDA-MB-231 and ZR-75-1 cells were seeded into triplicate wells of 6-well plates at 1,000 cells/well, and cultured for 7 days. The cells were then fixed with 4% paraformaldehyde and stained with 0.1% crystal violet solution (C0121, Beyotime Institute of Biotechnology, Haimen, China).
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