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7 protocols using si scramble

1

Autophagy Modulation in A549 Cells

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A549 cells were infected with an adenovirus-expressing tandem mRFP-GFP-LC3 fusion protein (HANBIO, Shanghai, China). After 24 h of infection, the cells were transfected with si-TM9SF1 or si-Scramble (si-TM9SF1: 5’-GGUUACGACCUGACGAGUUTT-3’; si-Scramble: 5'-UUCUCCGAACGUGUCACGUTT-3' (Gene Pharma Company, Suzhou, China) for 24 h. Then, the cells were incubated with 10 ug/mL of LPS for 24 h and fixed with 4% paraformaldehyde. The microphotographs of RFP-GFP-LC3 fluorescence were acquired with a confocal laser scanning microscope (Leica SP8, Germany). Autophagic flux was assessed by counting the number of yellow dots and red dots in each cell (20 cells were scored/each group).
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2

Modulating miR-221 and SOCS1 in A549 Cells

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A549 cells were cultured to 70% confluence, then transfection of miR-221 mimics (100 nM), miR-221 inhibitor (100 nM), mimics negative control (NC; 100 nM), inhibitor NC (100 nM), and small interfering RNA SOCS (si-SOCS1) (20 nM) or si-scramble (20 nM) (Shanghai GenePharma Co., Ltd.) were performed at 37°C for 24 h using Lipofectamine® 2000 (Invitrogen; Thermo Fisher Scientific, Inc.) according to the manufacturer's instructions. The mimics NC, inhibitor NC and si-scramble were non-targeting. Non-transfected cells are used as the Blank group. After 24 h the transfection, H1N1 virus were added in the cells at an MOI of 0.1. The cells were harvested at 12 or 24 h post-infection for testing.
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3

Modulating c-Met Expression via miR-140-5p

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The specific miR-140-5p mimics/inhibitor and corresponding negative control (NC), as well as specific siRNA for c-Met (si-c-Met) and si-Scramble were designed and purchased from GenePharma Co., Ltd (Shanghai, China). The target siRNA sequence for c-Met was: si-c-Met, 5′-CACAACAGTGTGGACCACAAGAGAT-3′; si-Scramble, 5′-CACTGACGGTGACCAGAACAAAGAT-3′. These oligo fragments were transfected into cells using Lipofectamine 2000 (Invitrogen, Carlsbad, CA, U.S.A.) according to the manufacturer’s instructions. At 48 h after transfection, cells were collected for further analysis.
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4

Modulating miR-106a-5p and STAT3 in HUVEC Cells

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The miR-106a-5p mimics (5′-AAAAGUGCUUACAGUGCAGGUAG-3′), miR-106a-5p inhibitor (5′-UAUGGCUUUUUAUUCCUAUGUGA-3′) and scrambled mimic or inhibitor were designed and synthesized by Shanghai GenePharma Co., Ltd. si-STAT3 (5′-GCAGCAGCTGAACAACATG-3′) and si-Scramble (5′-UUCUCCGAACGUGUCACGUTT-3′) were also designed and purchased from Shanghai GenePharma Co., Ltd. miR-106a-5p mimics (50 nM), miR-106a-5p inhibitor (50 nM) or si-STAT3 (100 nM) were transfected into cells (2×104 cells) using Lipofectamine® 2000 (Invitrogen; Thermo Fisher Scientific, Inc.), according to the manufacturer's protocols. After transfection for 48 h, cells were then exposed to ox-LDL for 48 h and collected for further experiments. Inhibitor experiments were performed using 30 µm STA-21 (Enzo Life Sciences, Inc.) as previously described (28 (link)). Briefly, HUVEC cells were co-treated with miR-106a-5p inhibitor and either 30 µm STA-21 or DMSO for 24 h and then exposed to ox-LDL for 48 h and collected for further experiments.
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5

Targeting SPP1 Expression in NSCLC

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siRNA targeting SPP1 (siSPP1) and a scrambled siRNA (siScramble) were synthesized by GenePharma (GenePharma, Shanghai, P.R. China) to decrease the expression of SPP1. The siScramble and siSPP1 were transfected to the HCC827AR and PC9AR cells by Lipofectamine 2000 (Invitrogen; Thermo Fisher Scientific Inc.) according to the manufacturer’s instructions. After 48 h, the cells were collected for further experiments. To validate the interference efficiency, SPP1 expression was examined by real-time quantitative (qRT)-PCR.
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6

Regulating EZH2 Expression in Oral Cancer Cells

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The miR-144-3p mimics and mimics negative control (mimics NC) were obtained from GenePharma. The EZH2 overexpression vector, pcDNA-EZH2, and pcDNA vector were constructed by GenePharma. In addition, EZH2 siRNA (si-EZH2) and si-Scramble were also purchased from GenePharma.
CAL-27 and SCC-4 cells (8.0×105/well) in a 6-well plate grown to approximately 80% confluence, and then respectively transfected with miR-144-3p mimics (20 nM), mimics NC (20 nM), si-EZH2 (50 nM), or 2 µg pcDNA-EZH2 using Lipofectamine® 2000 (Invitrogen; Thermo Fisher Scientific, Inc.). In addition, inhibition experiments were performed using the EZH2 inhibitor, GSK126 (a compound competes with S-adenosyl-methionine for binding to EZH2, thereby inhibiting histone methyltransferase activity without affecting EZH2 protein expression), as previously described (16 (link)). Briefly, the CAL-27 and SCC-4 cells were treated with 5 µM GSK126 (Shanghai HanXiang Life Technology Limited Corporation) or DMSO for 48 h and then collected for use in further experiments. The concentration of DMSO used was ≤1% to ensure the lack of cytotoxicity.
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7

Silencing Cell Adhesion Regulators

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Cells were transfected with varied siRNA (Genepharma, Shanghai, China), including a random sequence, siScramble, sense:(5′-UUCUCCGAACGUGUCACGUTT-3′); a siRNA specific to human ITGB3, sense:(5′-CCUGCACCUUUAAGAAAGATT-3′); a siRNA targeted to human FAK messenger, sense:(5′-GUGGAGGACUCUACAGUAUTT-3′); a siRNA targeted to human c-SRC messenger, sense:(5′-CGCGCCUCAUUAAACCAAATT-3′). Exponentially growing U87MG clones were transfected with the ITGB3, FAK, or SRC siRNA and Lipofectamine 2000 in the conditions recommended by the manufacturer (Invitrogen). The concentration of siScramble is similar to that of specific siRNA. Cells were used after 48 h with western blotting and adhesion assays as described above.
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