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33 protocols using mkn 45

1

Gastric Cancer Cell Line Characterization

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Non-cancerous control cells (GES-1), normal gastric mucosa cell line (RGM-1), and GC cell lines [(HGC-27 (derived from metastatic site: lymph node), AGS (derived from gastric adenocarcinoma), and MKN45 (derived from undifferentiated carcinomas)] were purchased from Procell. GES-1, HGC-27, and MKN45 cells were cultured in RMPI1640 (Procell) supplemented with 10% fetal bovine serum (FBS, Procell), while AGS cells were cultured in Ham’s F-12k (Procell) supplemented with 10% FBS.
Small interfering RNA against LINC00562 (si-lnc) or AP1S3 (si-AP1S3) and their corresponding negative control (si-NC) were provided by Sangon Biotech. MiR-4636 mimic (miR-4636), miRNA mimic NC (miR-NC), miR-4636 inhibitor (inhibitor), and miRNA inhibitor NC (inhibitor-NC) were directly obtained from Ribobio. The experimental cells were subjected to various transfections using Lipofectamine 2000 (Invitrogen) and then incubated at 37°C with 5% CO2 for 24 h. Next, the cells were collected, and real-time quantitative PCR (RT-qPCR) or Western blotting was conducted to examine transfection efficiency. The sequences of the vectors are summarized in Supplementary Table 1.
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2

Establishing Cisplatin-Resistant Gastric Cancer Cells

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Human normal gastric epithelial cell line GES-1 (CL-0563; Procell, Wuhan, China) and GC cell line MKN-45 (CL-0292; Procell), AGS (CRL-1739; ATCC, Manassas, VA, U.S.A.) were maintained in RPMI-1640 medium (Gibco, Grand Island, NY, U.S.A.) mixed with 10% FBS (Gibco) and 1% penicillin/streptomycin (Sigma-Aldrich, St. Louis, MO, U.S.A.) at 37°C with 5% CO2. Additionally, 293T cells (CRL-11268; ATCC) were maintained in DMEM (30-2002, ATCC).
GC cell line with cisplatin (DDP) resistance was established referring to a former work [27 (link)]. DDP concentration in RPMI-1640 medium for cell culture was gradually increased. 6 months later, DDP concentration in medium was altered to 2 µg/ml to maintain resistance.
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3

Gastric Cancer Cell Transfection Protocol

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This research used gastric cancer cell lines AGS, HGC27, MKN45, NCI-N87, and SNU-1, bought from Procell Life Science & Technology Co., Ltd. (Wuhan, China); HEK293T and human gastric mucosal epithelial cell line GES-1 were all stored in Dr. Zhou’s laboratory under standard conditions. The HUVEC endothelial cell line was bought from Fu Heng Biology (Shanghai, China). All cell lines were free of mycoplasma contamination. Cells were cultured in RPMI 1640 or ECM medium supplemented with 10% fetal bovine serum (FBS) (Procell, Wuhan, China) and 1% Penicillin/Streptomycin in a cell incubator.
shRNA was purchased from Shandong Virgin Bioscience. The plasmid of ESM1 (with flag label) was purchased from Guan Nan Biotechnology Co., Ltd. (Hangzhou, China). Gastric cancer cells in the logarithmic growth phase were digested with trypsin a day before, resuspended in a complete medium, and counted. An appropriate number of cells were seeded in 6-well plates to ensure that the confluence rate of the cells reached 50% before transfection experiments the next day. After transfection, the 6-well plates were placed in the cell incubator for 48 h. Finally, RT-qPCR and a Western blot were used to detect the overexpression and silencing efficiency of ESM1 mediated by the plasmid and shRNA in gastric cancer cells.
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4

Gastric Cell Lines Culture Protocol

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The GC cell lines (MKN-45 and AGS) were purchased from Procell (Wuhan, China), and the human gastric mucosa cell line GES-1 was from COBIOER Bioscience (Nanjing, China). Under standard conditions (37 °C + 5% CO2) MKN-45 and GES-1 cells were cultured in RPMI-1640 medium, while AGS cells were in Ham’s F-12 medium. Each medium was supplemented with 10% fetal bovine serum and 1% penicillin-streptomycin (Procell).
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5

Cell culture of HEK-293T and MKN45 cells

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Human embryonic kidney cells HEK-293T (Procell, Wuhan, China) and GC cells MKN45 (Procell) were cultured with RPMI-1640 medium (Thermo Fisher Scientific, Rockford, IL) containing 10% FBS and 1% penicillin-streptomycin sulfate (Thermo Fisher Scientific) in an incubator with 5% CO2 at 37 °C.
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6

Cultivation of Gastric Cell Lines

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Human gastric mucosa cell line (GES-1) used in this study was procured from BeNa Culture Collection (Beijing, China). Human GC cell lines (HGC-27, AGS) were bought from Cell Bank of the Chinese Academy of Sciences (Shanghai, China); both MKN-7 and MKN-45 cell lines were obtained from Procell Life Science & Technology Co., Ltd. (Wuhan, China). RPMI-1640 commercially acquired from Thermo Fisher Scientific (Waltham, MA) was used to culture GES-1, HGC-27, MKN-7, and MKN-45 cells under 37°C and 5% CO2. AGS cells were cultivated in F12K medium (Gibco). In addition, 10% fetal bovine serum (FBS; Gibco) and 1% penicillin-streptomycin (Gibco) both served as medium supplements. SF1670 (1 μM), an inhibitor of PTEN (phosphatase and tensin homolog), was purchased from MedChemExpress (South Brunswick, NJ).
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7

Gastric Cancer Cell Lines - Culturing and Transfection

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MKN-45, MGC803, AGS human gastric cancer cell lines and HEK-293T cell line were purchased from Procell Life Science&Technology Co., Ltd (Wuhan, China) in Jan 2019. All cell lines underwent short tandem repeats (STR)-authentication and mycoplasma contamination tests. And all cells were cultured with Dulbecco’s Modified Eagle Medium (DMEM) (Invitrogen, Carlsbad, CA, USA) containing 10% fetal bovine serum (FBS) (Hyclone, Logan City, UT, USA) and 1% penicillin/streptomycin (Hyclone, Logan City, UT, USA) in a humidified atmosphere of 5% CO2 at 37 °C. We performed rapid freezing cryopreservation for first two to four generations of cells with 1mL freezing medium of 90% FBS and 10% Dimethyl sulfoxide (DMSO) in liquid nitrogen.
SiRNA against lncRNA HOXA11-AS (si-HOXA11-AS), negative control siRNA of random sequence (siRNA-NC), miR-124-3p mimics, negative control miR-124-3p mimics (mimics NC), miR-124-3p inhibitor (ASO-miR-124-3p), and negative control miR-124-3p inhibitor (ASO-NC) were all purchased from Genechem Co., Ltd, (Shanghai, China). HOXA11-AS cDNA sequences were amplified and cloned to pcDNA3.1 carrier (Invitrogen, Carlsbad, CA, USA). According to the manufacturer’s instructions of Lipofectamine 2000 (Invitrogen, Carlsbad, CA, USA), cells transfection was conducted in six-well plates.
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8

tRF-24-V29K9UV3IU Gain-of-Function Assay

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The human gastric cancer cell line MKN-45 and 293T/17 cells were purchased from Procell. GC cells were cultured in RPMI 1640 medium (Corning, USA), contained with 10% fetal bovine serum (FBS) and 1% penicillin/streptomycin (PS), in an incubator at 37°C containing 5% CO2. For gain-of-function, experiments, we designed a tRF-24-V29K9UV3IU sequence with a 5′ phosphate group (5′-P-UAGGAUGGGGUGUGAUAGGUGGCA-3′), and tRF-24-V29K9UV3IU mimics and control sequences were transfected into MKN-45 cells using Lipofectamine 2000 following the manufacturer's protocol. All sequences are shown in Supplemental Table 1.
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9

Knockdown and Overexpression of Key Genes in Gastric Cancer Cells

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GC cell lines of HGC27, MKN45 and normal gastric epithelial cells GES‐1 were acquired from Procell Life Science & Technology. These cells were cultured in RPMI 1640 medium supplemented with 10% FBS (Gibco), 10 μg/ml streptomycin and 100 U/ml penicillin (Gibco) at 37°C, in 5% CO2.
Cells were then transduced with lentivirus expressing shRNA carrying sequences targeting FAT1 (sh‐FAT1‐1, sh‐FAT1‐2) TFAP2C (sh‐TFAP2C), or LINC00857 (sh‐LINC00857), or lentivirus overexpressing them (oe‐FAT1, oe‐TFAP2C, oe‐LINC00857), or the corresponding negative control (sh‐NC, oe‐NC). All lentivirus were synthesized by Shanghai Heyuan Biotechnology at a titer of 1 × 107–1 × 108. For transduction, cells in the logarithmic phase of growth were seeded onto six‐well plates (2 × 105 cells/well). Upon reaching a cell confluency of 60%, 800 μl fresh virus solution was mixed with 800 μl FBS and added with Polybrene to a final concentration of 6 μg/ml, followed by incubation with the cells for 12–24 h. The culture medium was then replaced by complete medium, at which time cells were further cultured at 37°C in 5% CO2. After 48 h of transduction, 2.5 μg/ml puromycin was used to screen cells for 7–10 days, followed by RT‐qPCR and western blot analyses to verify successful transduction.
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10

Gastric Cell Line Maintenance Protocol

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GC cell lines (MKN-45, N87, HGC27 and AGS) and gastric epithelial cell line (GES-1) were bought from Procell (Wuhan, China). The cells were kept in RPMI 1640 medium (Procell) added with 10% FBS (Procell) and 1% penicillin-streptomycin (Procell) at 37°C in a humidified environment consisting of 5% CO2.
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