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51 protocols using sirna2

1

siRNA Knockdown of IgG Constant Region

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The siRNAs against Ig gamma chain constant region (siRNA1 and siRNA2) and the control RNA (NC) (siRNA1: 5′-GGUGGACAAGACAGUUGAG-3′, siRNA 2: 5′-AGUGCAAGGUCUCCAACAA-3′, NC: 5′-UUCUCCGAACGUGUCACGU-3′) purchased from Shanghai GenePharma Corporation, China. Cell density was adjusted to 2 × 106/350 μl. The knockdown efficiency of IgG was checked by Western blot.
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2

Silencing IgG Constant Region

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siRNAs against the constant region of the Ig γ-chain (siRNA1, 5′-GGUGGACAAGACAGUUGAG-3′; and siRNA2, 5′-AGUGCAAGGUCUCCAACAA-3′) and the non-silencing control RNA (NC, 5′-UUCUCCGAACGUGUCACGU-3′) were produced by Shanghai GenePharma Co. Ltd. (Shanghai, China). The siRNAs and NC were transfected into the 5637 and BIU87 cell lines using Lipofectamine 2000 (Thermo Fisher Scientific, Inc.), according to the manufacturer's protocol. The knockdown efficiency of IgG was verified by western blot analysis.
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3

Silencing ciRS-7 Expression with siRNAs

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To silence ciRS-7 expression, two small interfering RNAs (siRNAs) (siRNA1 and siRNA2) targeting ciRS-7 and the negative control (siNC) were designed and synthesized by the GenePharm Company (Suzhou, China). siRNAs were then transiently transfected into cells using Lipofectamine 2000 (Invitrogen). Further assays were performed after the transfected cells were cultured for 48 h. The sequences were as follows: siRNA1: 5′-GCACCTGTGTCAAGGTCTTTT-3′; siRNA2: 5′-CTGTTCAGAGTGGATCGTTT-3′; siNC: 5′-TTCTCCGAACGTGTCACGTTT-3′.
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4

Modulating hsa_circ_0000729 and miR-1281 in NSCLC

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NCI-H1299 or A549 cells (5×103) were transfected with hsa_circ_0000729 siRNA1 (si-hsa_circ_0000729-1), hsa_circ_0000729 siRNA2 (si-hsa_circ_0000729-2), hsa_circ_0000729 siRNA3 (si-hsa_circ_0000729-3) or negative control (NC; siRNA-ctrl) for 24 h by using Lipofectamine® 2000 (Invitrogen). Hsa_circ_0000729 siRNA1, siRNA2, siRNA3 and siRNA-ctrl were purchased from Genepharma (Shanghai, China). After 24 h of transfection, cells were harvested of use in the subsequent analysis.
For miR-1281 transfection, NSCLC cells were transfected with miR-1281 agomir, miR-1281 antagomir or NC by using Lipofectamine® 2000 (Thermo Fisher Scientific). MiR-1281 agomir, antagomir and NC were obtained from Genepharma. After 24 h of transfection, cells were harvested for use in the subsequent analysis.
For hsa_circ_0000729 overexpression, NCI-H1650 cells were transfected with pcDNA3.1 or pcDNA3.1-hsa_circ_0000729 for 24 h by using Lipofectamine® 2000 (Thermo Fisher Scientific). pcDNA3.1 and pcDNA3.1-hsa_circ_0000729 were obtained from Genepharma.
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5

Cloning and Knockdown of RLIM and MIZ1

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The RLIM cDNA was amplified from Marathon fetal liver cDNA library (Takara, Mountain View, California, USA), and subcloned into pCMV-HA/Myc vectors. The pUHD-MIZ1 was kindly provided by Dr. Frank Hanel (Hans Knoell Institute, Germany), and was subcloned into pCDNA3.1+ with an N-terminal Flag tag. All truncation mutants were generated using the KOD-Plus Mutagenesis Kit of Toyobo (Osaka, Japan). The truncation constructs of RLIM and MIZ1 were also subcloned into pCMV-HA/Myc and pCDNA3.1-Flag vector, respectively. Two siRNA oligonucleotides against RLIM were purchased from GenePharma (Shanghai, China) with sequences as follows, siRNA1: 5’-GUUCCAGUUCCAGUCCUAG-3’ and siRNA2: 5’-CACUUGCUCCUCCAAAAUC-3’.
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6

Brachyury Overexpression/Knockdown Cell Lines

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To construct brachyury overexpression/knockdown cell lines, viral particles containing a small interfering RNA (siRNA-1 and siRNA-2) targeting brachyury or the human brachyury coding region purchased from GenePharma (Suzhou, China) were utilized in H460 cells and Calu-1 cells. The cell lines were constructed as described (9 (link), 18 (link)) previously and validated using western blotting (siRNA-1: CGAATCCACATAGTGAGAGTT; siRNA-2: GAGGATGTTTCCGGTGCTGAA; siRNA-Control: TTCTCCGAACGTGTCACGT).
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7

P2Y2 Gene Silencing Techniques

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P2Y2 gene was silenced with small interfering RNA (siRNA) or small hairpin RNA (shRNA). Two P2Y2 siRNA oligonucleotides (siRNA1 and siRNA2) were purchased from Genepharma (Shanghai, China) and the sequences are as follows: P2Y2 siRNA1, 5′‐GUGCUAACAGUUGCCUUGA‐3′ and P2Y2 siRNA2, 5′‐GCCCAAGAGAUGAACAUCU‐3′. A scramble siRNA oligonucleotide was used as negative control siRNA (designated as NC). Cells were transfected with siRNAs using Lipofectamine RNAiMAX Reagent (Invitrogen). An oligonucleotide labeled with fluorescence was applied to directly observe the efficiency of siRNA transfection.
P2Y2 shRNA plasmid as well as a negative control shRNA (NC) was constructed in our lab as described by Li WH et al.12 By using Lipofectamine 2000 (Invitrogen), we transfected MDA‐MB‐231 cells with P2Y2 shRNA or control shRNA, and selected stable clones using G418 (GIBCO).
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8

Silencing CADM1-AS1 with siRNA

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Two small interfering RNAs (siRNA1 and siRNA2) for CADM1-AS1 silencing and a non-targeting (NT) siRNA were obtained from GenePharma (Shanghai, China). The sequences were as follows: siRNA1, Sense 5ʹ-rGrUrArCrCrUrCrCrUrGrCrCrUrUrUrGrUrCrArArGrCrCAA-3ʹand antisense 5ʹ-rUrUrGrGrCrUrUrGrArCrArArArGrGrCrArGrGrArGrGrUrArCrArA-3ʹ; siRNA2, sense 5ʹ-rGrArCrCrUrArUrCrGrArGrArArCrUrGrArGrArGrCrGrACA-3ʹ and antisense 5ʹ-rUrGrUrCrGrCrUrCrUrCrArGrUrUrCrUrCrGArUrArGrGrUrCrArG-3ʹ. The cells (2×105/ml) seeded in 6-well plates overnight were mixed gently with 5 μg siRNA and 10 μl of Lipofectamine 3000 (Invitrogen, USA) in 250 μl opti-MEM (Gibco) and incubated at 37 °C for 24 h. Then, the medium was replaced with fresh complete medium, and the cells were incubated for a further 24 h.
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9

HDAC4 Knockdown Using siRNA Transfection

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The HDAC4 siRNA1, siRNA2 and negative control (NC) were designed and synthesized by Shanghai GenePharma, Ltd. (Shanghai, China). When the cells reached 60% confluence, 100 nM HDAC4 siRNA1, siRNA2 and NC were transfected into the cells with Invitrogen Lipofectamine® 2000 RNAiMAX reagent (Thermo Fisher Scientific, Inc.), respectively, according to the manufacturer's protocol.
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10

Silencing MUTYH in A549 Lung Cancer Cells

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A549 cell lines were purchased from ATCC (American Type Culture Collection, Manassas, VA, USA). A549 cells were cultured in 1640 medium (Gibco) containing heat-inactivated 10% fetal bovine serum (FBS) and maintained in a humidified atmosphere of 95% air and 5% CO2 at 37°C. For siRNA transfection, A549 cells were seeded at 5 × 105 cells/well in 6-well plates one day prior to transfection. siRNA transfection was performed when the cell density reached 60%-70% using Lipofectamine 3000 according to the manufacturer's protocol (Invitrogen, Thermo Scientific, MA, USA). Three siRNA duplexes targeting MUTYH (siRNA-1, siRNA-2, and siRNA-3) were chemically synthesized and ordered from GenePharma (Shanghai, China). A scrambled siRNA (GenePharma, China) was also provided as a negative control. The sequences of the siRNAs are listed in Supplementary Table S1.
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