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24 protocols using sirna2

1

Silencing of lncRNA NONHSAT129183 in PTC cells

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Human PTC cell lines (SW579 and TT) were obtained from the Cell Bank of the Chinese Academy of Sciences (Shanghai, China). All cell lines were cultured in RPMI-1640 (Gibco) supplemented with 10% fetal bovine serum (FBS; Gibco), 100 U/ml penicillin, and 100 mg/ml streptomycin (Invitrogen) at 37°C in a humid atmosphere containing 5% CO2. Three siRNAs were initially designed and used in our study. The siRNA-1, siRNA-2, and siRNA-3 sequences were purchased from RiboBio (Guangzhou, Guangdong, China) and are as follows: siRNA-1 (Si-1, 5′-AGAAAGUGUUGUUGAAUAACU-3′), siRNA-2 (Si-2, ′-GGAUGGUCAAGUUCUAGAACA-3′), siRNA-3 (Si-3, 5′-UUCUAGAACUUGACCAUCCUU-3′), and negative control siRNA (si-NC; 5′- UUCUCCGAACGUGUCACGUTT-3′). The TT and SW579 cells were transfected using Lipofectamine 2000 (Invitrogen) according to the manufacturer’s protocol. After 48 h of transfection, lncRNA NONHSAT129183 expression was determined using qPCR. Preliminary qPCR results indicated that siRNA-2 had a significantly higher silencing efficiency than siRNA-1 and siRNA-3. Thus, siRNA-2 was chosen for the cellular physiological function assays.
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2

siRNA Knockdown and Overexpression of H19

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The siRNAs (siRNA1 and siRNA2) for knockdown of H19 and the scramble siRNA for negative control were purchased from RiboBio (Guangzhou, People’s Republic of China). The constructed H19-overexpressing vectors (pcDNA3.1-H19) and pcDNA3.1 empty vectors were obtained from GenePharma (Shanghai, People’s Republic of China). For siRNA and vector transfection, cells were seeded into six-well plates at a density of 5 × 104 cells/well to reach about 50%–80% confluence for transfection. The transient transfection was performed by using Lipofectamine 2000 reagent (Invitrogen, Carlsbad, CA, USA) according to the manufacturer’s protocol. At 24 h after transfection, cells were processed for further experimentation.
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3

Silencing LASS2 in Bladder Cancer Cells

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The RT4 and T24 human BC cell lines (The Second Affiliated Hospital of Kunming Medical University, Yunnan Institute of Urology, Kunming, China) were maintained in RPMI-1640 medium supplemented with 10% fetal bovine serum (Thermo Fisher Scientific, Inc., Waltham, MA, USA), 100 U/ml penicillin and 100 µg/ml streptomycin. Cells were incubated at 37°C in a humidified atmosphere containing 5% CO2. Invitrogen RPMI-1640 medium, PBS, Opti-MEM I, Lipofectamine 2000 and glutamine were purchased from Thermo Fisher Scientific, Inc.
Two siRNA sequences targeting LASS2 [National Center for Biotechnology Information (NCBI) accession nos. NM013384, NM181747 and NM022075] were synthesized by Guangzhou RiboBio Co., Ltd. (Guangzhou, China): siRNA-1, 5′-GGCUAUUACUUCUUCAAUUTT-3′ and siRNA-2, 5′-CAGUAUUGGUACUACAUGATT-3′. Unspecific control siRNA (si-NC) was also obtained from Guangzhou RiboBio Co., Ltd. The siRNAs were transfected into the RT4 cell line using Lipofectamine 2000, according to the manufacturer's protocol. siRNA was used for the in vitro experiments, and shRNA was used for cell selection and then for the Xenograft model.
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4

Investigating INHBA Silencing in Colorectal Cells

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The siRNA of INHBA (siRNA1, siRNA2, and siRNA3) were purchased from RiboBio (Guangzhou, China). The plasmid encoding human INHBA was constructed by PCR amplification and subcloned into pEGFP-C1 expression vector to obtain pEGFP-INHBA. Following the manufacturer’s instructions, the transfection was carried out with a jetPRIME kit (Polyplus Transfection, Illkirch, France). LoVo cells were transfected with INHBA siRNA or negative control siRNA. pEGFP-INHBA or control vector (vec) were transfected into CACO2 and SW480 cells.
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5

SiRNA Silencing of BLM Gene

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Small interfering RNA (SiRNA) silencing was attained by transient transfection with Lipo3000 (Invitrogen, Waltham, MA, USA). BLM siRNAs (si-RNA1 and si-RNA2) were purchased from RiboBio (RiboBio, Guangzhou, China), with scramble RNA serving as a negative control (scramble). The sequences for si-RNA1 and si-RNA2 were 5′-GGATGTTCTTAGCACATCA-3′ and GACTCAGAATGGTTAAGCA, respectively. The scramble sequence was 5′- TTCTCCGAACGTGTCACGTdTdT-3′. The siRNA knockdown efficiency was examined by qRT-PCR and western blotting assays.
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6

Silencing Na+/K+-ATPase α1 Expression

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SiRNA duplexes against human Na+/K+-ATPase α1 subunit (siRNA-1: 5’-GATTCGAAATGGTGAGAAA-3’, siRNA-2: 5’-GTCGTCTGATCTTTGATAA-3’, siRNA-3: 5’-GAATTTCCCTATCGATAAT-3’) and control scrambled siRNA were synthesized by RiboBio (Guangzhou, China). The siRNA transfection was conducted using lipofectamine 3000 (Invitrogen, CA, USA) following the manufacturer’s protocol.
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7

DEK-Targeting siRNA Knockdown Experiment

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We purchased three different DEK siRNA, including si-RNA1, si-RNA2, and si-RNA3, from RIBOBIO (China). According to the KD effect, si-RNA2 and si-RNA3 was used in this study. The sequence of si-RNA2 (si-DEK 2) was 5′-CGAACCAAAUGUCCUGAAA-3′. The sequence of si-RNA3 (si-DEK 3) was 5′-UGUCCUCAUUAAAGAAGAA-3′. Additionally, control siRNA (si-control) was also used in this study. Cells were transfected with 30 nM siRNA using Lipofectamine 3000 (Invitrogen) according to the manufacturer's instructions.
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8

Silencing LncRNA APOC1P1 in RCC Cells

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Human RCC cell lines (A498, 786-O, ACHN, and Caki-1) and an immortalized normal human renal tubular epithelial cell line (HK-2) were purchased from The Institute of Cell Research of the Chinese Academy of Sciences (Shanghai, China). A498, 786-O, and HK-2 cells were cultured in RPMI-460 medium (Hyclone; GE Healthcare Life Science, Logan, UT, USA). ACHN and Caki-1 cells were grown in MEM medium and McCoy's 5A medium (Gibco; Thermo Fisher Scientific Inc.), respectively. All media were supplemented with 10% fetal bovine serum (FBS; Hyclone; GE Healthcare Life Science). Cells were cultured at 37°C with 5% CO2. Three small interfering RNAs (siRNAs) targeting LncRNA APOC1P1 (siRNA1, siRNA2, and siRNA3) were designed by Guangzhou RiboBio Co. Ltd. (Guangzhou, China). siRNA transfection was conducted with a Lipofectamine 2000 Reagent (Invitrogen, Carlsbad, CA, USA) in accordance with the manufacturer's protocols. The efficiency of knockdown was tested 72 h after transfection.
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9

Silencing HMGB1 and IKK-β in RAW264.7 cells

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Three HMGB1-specific siRNAs and three IKK-β specific siRNAs (siRNA-1, siRNA-2 and siRNA-3) were provided by Guangzhou RiboBio Co., Ltd. RAW264.7 cells were seeded in 6-well plates at 5 × 105 cells per well until they reached 60% confluence. MiR-339-5p and a siRNA were co-transfected into RAW264.7 cells with Lipofectamine 3000 according to the manufacturer’s instructions. After 36 h, the silencing efficiencies of the siRNAs were analysed by Western blotting. The transfection concentration of the mimic, mimic negative control and siRNAs was 50 nM, and the transfection concentration of the inhibitor and inhibitor negative control was 100 nM. Western blot and immunofluorescence analyses were performed after 36 h.
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10

Ezrin Knockdown Using siRNA

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We purchased two different Ezrin siRNA, including si-RNA1 and si-RNA2, from RIBOBIO (China). According to the KD effect, si-RNA1 was used in this study. The sequence of si-RNA1 (si-Ezrin) was 5′-AAGGAAUCCUUAGCGAUGAGA-3′. Additionally, control siRNA (si-control) was also used in this study. Cells were transfected with 30 nM siRNA using Lipofectamine 3000 (Invitrogen) according to the manufacturer's instructions. For the KD effect of si-RNA2, we showed the some results in Figure S2.
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