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Scramble control sirna

Manufactured by GenePharma
Sourced in China

Scramble control siRNA is a laboratory reagent used in RNA interference (RNAi) experiments. It is designed to have no known target within the genome, serving as a negative control to assess the specificity of gene silencing by targeting siRNAs.

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16 protocols using scramble control sirna

1

Silencing Oncogenic Pathways in HepG2 Cells

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Human hepatocellular carcinoma cell lines (HepG2) were purchased from the Institute of Biochemistry and Cell Biology of the Chinese Academy of Sciences (Shanghai, China). The cells were cultured in Dulbecco’s Modified Eagle Medium (DMEM, Gibco, NY, USA), supplemented with 10% fetal bovine serum (FBS, Gibco) as well as 100 U/ml penicillin and 100 μg/ml streptomycin (Invitrogen, CA, USA) and maintained at 37 °C with 5% CO2.
Small double-strand interference RNAs (siRNAs) for LASER (CCUCUUCUAAGCUCUUUAUTT), LSD1 (GAAGCTACATCTTACCTTA), EZH2 (GCTGAAGCCTCAATGTTTA), SREBP2 (CAAGGAGAGTCTATACTGT), CoREST(AAGAUUGUCCCGUUCUUGACU), LXRα (CTGCCCAGCAACAGTGTAA) and control scramble siRNA (UUCUCCGAACGUGUCACGUTT) were synthesized by GenePharma (Shanghai, China).
For RNAi assay, HepG2 cells were seeded at a density of 3.0 × 105 cells per well in a 6-well plate, when the density of cell reach to 70–90% the next day, transfection was performed. After the density of the cells reached to 70–90%, transfection was performed by incubating the siRNA with Lipofectamine RNAiMAX in Opti-MEM for 30 min at room temperature to allow siRNA-lipid complexes to form. Then, the mixed reagents were added to the target cells for a final concentration of 50 nM siRNA. After incubation with siRNA for 48 hrs, the cells were harvested for the experiments.
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2

Stable Cell Line Generation for FOXC1 and CXCR4

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For siRNA‐mediated knockdown, cells were transiently transfected with siRNAs using Lipofectamine 2000 (Invitrogen, Carlsbad, CA, USA) according to the manufacturer's instructions. MDA‐MB‐231 cells stably overexpressing FOXC1 or BT549 cell with stable knockdown of FOXC1 and their respective control transfectants were generated using standard procedures.4 Briefly, cells were stably transfected with the pLKO.1 shFOXC1 or the control shRNA construct using Lipofectamine 2000 and selected with 5 μg/mL puromycin. A full‐length human FOXC1 cDNA was inserted into the pCMV6 plasmid and stably transduced into MDA‐MB‐231 cells using Lipofectamine 2000. Stable transfected MDA‐MB‐231 cells were selected with 800 μg/mL G418. Overexpression or knockdown efficiency was confirmed by quantitative RT‐PCR and immunoblotting analysis. An siRNA targeting CXCR4 and a control scramble siRNA were purchased from GenePharma (Shanghai, China). The sequence for si‐CXCR4 was 5′‐UAAAAUCUUCCUGCCCACCdTdT‐3′.30 The nonspecific scramble siRNA (5′‐UUCUCCGAACGUGUCACGUdTdT‐3′) was used as the negative control. The human FOXC1 shRNA sequence is CCGGCAAGAAGAAGGACGCGGTGAACT‐ CGAGTTCACCGCGTCCTTCTTCTTGTTTTTG, corresponding to 523‐543 of the FOXC1 cDNA.
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3

Investigating CCNB1 Silencing and miR-144 Modulation

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siRNA targeting CCNB1 (CCNB1-siRNA, GAAUUCUGCACUAGUUCAA), Scramble siRNA control (Scramble-siRNA, GAUUAGUCACCUGACUAUA), miR-144 mimics (GGAUAUCAUCAUAUACUGUAAG), miR-144 inhibitor (CUUACAGUAUAUGAUGAUAUCC) and Scramble controls (GAGUACUACUUAUACAGUAUAG) were designed and synthesized by Shanghai GenePharma Company (Shanghai, China). Cells were seeded into 96-well plates in antibiotic-free growth medium at the density of 4 × 103 cells per well. Transfection with was performed when the cells reached 70–80% confluence using Lipofectamine 2000 (Invitrogen, USA) in accordance to the manufacturer’s protocol.
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4

Targeting DUXAP8 and miR-9-3p in Liver Cancer

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DUXAP8 small interfering (si)RNA (si-DUXAP8#1, 5'-AGTTCAGTGTATTTGATAATA-3'; si-DUXAP8#2, 5'-GATTTGGTTTCAGAATCAAAG-3'; si-DUXAP8#3, 5'-GATGGTGTTGTACCACCTATA-3') and scramble siRNA control [si-negative control (NC): 5'-TTCTCCGAACGTGTCACGTTT-3'] were purchased from Shanghai GenePharma Co., Ltd. miR-9-3p mimic (5'-ATAAAGCTAGATAACCGAAAGT-3'), scramble mimic control (miR-NC; 5'-TTCTCCGAACGTGTCACGTTT-3'), miR-9-3p inhibitor (5'-ACTTTCGGTTATCTAGCTTTAT-3') and scramble inhibitor control (anti-miR-NC; 5'-CAGTACTTTTGTGTAGTACAA-3') were purchased from Applied Biosystems; Thermo Fisher Scientific, Inc. Furthermore, to overexpress DUXAP8 or IGF1R, the full length sequence of DUXAP8 or IGF1R was inserted into the pcDNA3.1 vector (Invitrogen; Thermo Fisher Scientific, Inc.) to generate pcDNA3.1-DUXAP8 (DUXAP8) and pcDNA3.1-IGF1R (IGF1R), respectively. pcDNA3.1 empty vector was used as negative control. SK-HEP-1 and Huh-7 cells in 6-well plates (2x105 cells/well) were transfected with oligonucleotides (50 nM) and plasmids (2 µg) using Lipofectamine® 2000 (Invitrogen; Thermo Fisher Scientific, Inc.). Following incubation for 48 h, the transfected cells were harvested and utilized for subsequent experiments.
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5

siRNA Knockdown Efficiency in BMMs

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si-MITF and scramble siRNA (control) were designed and synthesized by GenePharma (Shanghai, China). The siRNAs were transfected into BMMs by Lipofectamine 2000™ (Invitrogen, U.S.A.). qRT-PCR was performed to examine the knockdown efficiency.
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6

Examining MeCP2 Regulation via miR-98

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The Mecp2 3′-UTR and Mecp2 3′-UTR-mutant sequences were amplified by PCR from human genomic DNA using the primers in Table 2. After being double digested with SpeI and XbaI, the PCR products were cloned into pGL3 control vector (Invitrogen, Carlsbad, CA, USA). The coding region of Mecp2 sequence was amplified by RT-PCR from total mRNA of human JEG-3 cells using the primers in Table 2. After being double digested with BamHI and EcoRI, the PCR product was cloned into PMSCV-puro vector, designated as PMSCV-Mecp2. All the constructs were verified by DNA sequencing. Specific siRNAs for scramble and Mecp2 were synthesized as a duplex with the following sequence: scramble siRNA, 5′-CUUCUUAGGUGGUUUCUGC-dTdT-3′, Mecp2 siRNA, 5′-GCAGAAACCACCUAAGAAG- dTdT-3′.
The miR-98 mimic, mimic control, miR-98 inhibitor, inhibitor control, scramble siRNA control and Mecp2 siRNA were synthesized by GenePharma (GenePharma Co., Ltd, Shanghai, China), and transfected into cells by the lipofectamine 2000 (Invitrogen, Carlsbad, CA, USA) according to the manufacture’s instruction.
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7

Modulation of p38 and MRP1 in ARPE-19 Cells

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ARPE-19 cells were transfected with p38 siRNA (90 pmol per 12-well) using lipofectamine 3000 (Invitrogen) according to instructions. The sequence of p38 siRNA was 5′- GCAUAAUGGCCGAGCUGUUTT -3′, which was referenced from the literature [67 (link)]. Both siRNA targeting p38 and scramble siRNA control were synthesized by GenePharma (Shanghai, China). After being transfected with siRNA for 24 h, cells were exposed to UCB (50 μM) or anisomycin (50 nM) for another 72 h. Then, Western blot was performed to detect the p38 and MRP1 expressions.
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8

Regulation of VEGFA by miR-140-5p in CRC

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The miR-140-5p mimic, normal mimic control, miR-140-5p inhibitor and negative inhibitor control were chemically synthesized by Shanghai GenePharma Company (Shanghai, China). VEGFA siRNA and its scramble siRNA control were also purchased from GenePharma Company. The sequence for VEGFA siRNA and scramble siRNA were as follows: VEGFA siRNA, sense: 5'-GGCAGAAUCAUCACGAAGUTT-3', antisense: 5'-ACUUCGUGAUGAUUCUGCCTT-3'; scramble siRNA, sense: 5'-UUCUCCGAACGUGUCACGUTT-3', antisense: 5'-ACGUGACACGUUCGGAGAATT-3'. CRC Cells were plated in 6-well plates and transfected with 100nM of the mimic, mimic control, inhibitor, inhibitor control using Lipofectamine 2000 (Invitrogen) according to the manufacture's protocol. VEGFA siRNA or scramble siRNA were transfected using the same approach.
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9

Linc00511 Silencing in Cancer Cells

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SW1990 cells and ASPC‐1 cells were transfected with 100 nM of scramble control siRNA or linc00511 siRNA#1 or linc00511 siRNA#2 purchased from GenePharma Co (Shanghai, China), using Lipofectamine 3000 reagent (Invitrogen). The stable silencing of linc00511 was performed by shRNA interference. The procedures are described in Supplementary Methods Data S1. All oligonucleotide sequences are provided in Table S1.
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10

Cypher siRNA Knockdown in H9C2 Cells

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Small interfering RNA was transfected into H9C2 cells using Lipofectamine RNAiMAX (Invitrogen) by following the manufacturer's instructions. The H9C2 cells were harvested for total protein or RNA extraction 48 h after siRNA treatment. Cypher siRNA and scramble control siRNA were purchased from GenePharma (Shanghai, China). The Cypher target sequence was GGAACAGCCUCUUCCACAUTT.
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