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16 protocols using hif 1α sirna

1

Modulating HIF-1α Expression in H9c2 Cells

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H9c2 cells in logarithmic phase were collected and loaded into 6-well plates (1 × 106 per well), which were then incubated at 37 °C until 80% confluence. Small interfering RNA RNA (siRNA) directed against HIF-1α (siRNA-HIF-1α) and HIF-1α overexpressed plasmid (pcDNA-HIF-1α) were designed and synthesized by GenePharma Corporation (Shanghai, China). The transfection procedure was carried out using Lipofectamine 2000 Reagent (Invitrogen, Carlsbad, CA, USA) according to the manufacturer’s protocol. Cells were harvested 48 h following transfection and the transfection efficiency was determined using reverse transcription-quantitative PCR (RT-qPCR).
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2

Silencing HIF-1α in hUSLFs

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After hUSLFs were cultured overnight to reach 60–70% confluence, cells were transfected with small-interfering RNA (siRNA) for HIF-1α using lipofectamine 2000 (Invitrogen, Carlsbad, CA, USA). The siRNA HIF-1α was designed by GenePharma Company (Shanghai, China). The siRNA HIF-1α and negative control sequences were as follows: 5′-GCCGCUCAAUUUAUGAAUATT-UAUUCAUAAAUUGAGCGGCTT-3′, 5′-UUCUCCGAACGUGUC ACGUTT-ACGUGACACGUUCGGAGAATT-3′.
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3

Modulating lncRNA-NEAT1 and UCK2 in Cancer

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Cells were transfected with the plasmid pcDNA3.1-NEAT1 to up-regulate lncRNA-NEAT1 expression, while the plasmid pcDNA3.1-UCK2 was used to overexpress UCK2. The empty plasmid pcDNA3.1 served as a negative transfection control. All plasmid were obtained from GenePharma(Shanghai, China). Small interfering RNA for lncRNA-NEAT1 (siRNA-NEAT1) UCK2 (siRNA-UCK2) and HIF-1α (siRNA- HIF-1α) were used to silence their expression (Genepharma, Shanghai, China). To upregulate candidate miRNAs, miR-mimics were obtained. AllStars Negative Control siRNA was used to transfect cells with siRNA and miR-mimics (Qiagen, Hilden, Germany). Prior to experimentation, the cells were transfected for 24 or 48 h. To obtain stably transfected SNU-182 cells, lentiviral vectors were prepared by Genechem Company (Shanghai, China) and used to deliver lncRNA-NEAT1 (Lv-NEAT1), miR-199a-3p (Lv-miR-199a-3p), and shRNA-UCK2 (Lv-shRNA-UCK2). Successful transfection was confirmed by quantitative reverse transcription-polymerase chain reaction (qRT-PCR) analysis after 48 h (Supplementary Figure 1).
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4

Overexpression and Silencing of NEAT1, UCK2, and HIF-1α

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Cells were transfected with the plasmid pcDNA3.1-NEAT1 to up-regulate lncRNA-NEAT1 expression, while the plasmid pcDNA3.1-UCK2 was used to overexpress UCK2. The empty plasmid pcDNA3.1 served as a negative transfection control. Small interfering RNA for lncRNA-NEAT1 (siRNA-NEAT1) UCK2 (siRNA-UCK2) and HIF-1α (siRNA-HIF-1α) were used to silence their expression (Genepharma, Shanghai, China).
To upregulate candidate miRNAs, miR-mimics were obtained. AllStars Negative Control siRNA was used to transfect cells with siRNA and miR-mimics (Qiagen, Hilden, Germany). Prior to experimentation, the cells were transfected for 24 or 48 h. To obtain stably transfected SNU-182 cells, lentiviral vectors were prepared by Genechem Company (Shanghai, China) and used to deliver lncRNA-NEAT1 (Lv-NEAT1), miR-199a-3p (Lv-miR-199a-3p), and shRNA-UCK2 (Lv-shRNA-UCK2). Successful transfection was con rmed by quantitative reverse transcription-polymerase chain reaction (qRT-PCR) analysis after 48 h (Additional le 1: Supplementary Fig. 1).
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5

Silencing HIF-1α and MIR210HG in TNBC Cells

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For siRNA transfection, Hs578T, MDA-MB-231, and HCC1937 cells were seeded in six-well plates and allowed to grow to 50–70% confluence. Then, the cells were transfected with HIF-1α siRNA or negative control (GenePharma Inc., Shanghai, China) at a concentration of 50 nM using Lipofectamine 2000 reagent (Invitrogen, USA) according to the manufacturer’s instructions. To generate stable MIR210HG-depleted TNBC cells, the pCDH-CMV-MCS-EF1-copRFP lentiviral vector was used. The shRNA sequences were shown as follows: sh-MIR210HG-1, 5′-GCATTAGTACAGGCACCAGCCTA-3′; sh-MIR210HG-2, 5′-UUUAGACCCAUUCUCGUAUGGAGGU-3′. A non-silencing shRNA (sh-Ctrl) oligonucleotide was used as a negative control.
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6

Transient Transfection of 4T1 Cells

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Transient transfection of 4T1 cells was carried out using Lipofectamine 2000 (Invitrogen) as recommended by the manufacturer. HIF‐1α siRNA, overexpression pcDNA3.1 + HIF‐1α vector and their respective negative control oligonucleotides were purchased from GenePharma.
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7

Knockdown of HIF-1α in PC12 Cells

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HIF-1α siRNA was purchased from GenePharma Co., Ltd. (Shanghai, China) with the following sequences: sense 5’-CCAUGUGACCAUGAGGAAATT-3’, antisense 5’-UUUCCUCAUGGUCACAUGGTT-3’; negative control (NC): sense 5’-UUCUCCGAACGUGUCACGUTT-3’, antisense 5’-ACGUGACACGUUCGGAGAATT-3’. siRNA transfection was performed with Lipofectamine 2000 Transfection Reagent (Invitrogen) according to manufacturer’s instructions. PC12 cells were transfected with 30 pM siRNA for 48 h, followed by Rox treatment for another 24 h. Then, knockdown efficiency was validated by immunoblot analysis.
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8

Modulation of HIF-1α and miR-210 in Cells

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The HIF‐1α siRNA, miR‐210 mimics, miR‐210 inhibitors, RUNX3 siRNA and scrambled control sequences were purchased from GenePharma (Shanghai, China). RUNX3 plasmid was generated by GeneChem (Shanghai, China) using the GV208 vector. Cells were transiently transfected with the HIF‐1α siRNA, miR‐210 mimics, miR‐210 inhibitors, RUNX3 siRNA, RUNX3 plasmids or scrambled control sequences using Lipofectamine 2000 according to the manufacturer's protocol, with slight modifications. Specifically, both cells were cultured in six‐well culture plates 24 hrs prior to transfection. Then, 4 μl of Lipofectamine 2000 were incubated with 100 pmol of siRNA/mimics/inhibitors (2 μg plasmids) or negative control sequences in 500 μl of Opti‐MEM for 20 min. at room temperature. Cells were transfected by replacing the medium with 2 ml of Opti‐MEM containing the siRNA/mimics/inhibitors (plasmids) or negative control sequences and Lipofectamine 2000, and incubated at 37°C in a humidified atmosphere of 5% CO2 for 6 hrs. Then, the Opti‐MEM was replaced with 2 ml of fresh culture medium. 24 or 48 hrs, the cells were incubated with PQ for 24 hrs, collected, and real‐time PCR and Western blotting assays were performed.
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9

Cell Transfection with Lipofectamine

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Cell transfection was performed with Lipofectamine 2000 (Invitrogen; Thermo Fisher) according to the manufacturer's protocol. Briefly, cells were seeded in a 10-cm dish at 70% confluence one day prior to transfection. Nucleotides formed transfection complexes with Lipofectamine 2000, and were added to cells and incubated for 6-8 h prior to refreshing the medium. Small interfering RNAs (siRNAs) were synthesised by GenePharma Co., Ltd., (Shanghai, China) based on the following sequences: HIF-1α siRNA: sense 5' CCAACCUCAGUGUGGGUAUdTdT 3' and antisense 5' AUACCCACACUGAGGUUGGdTdT 3', and Rab22 siRNA: sense 5' GGAUACAGGUGUAGGUAAAdTdT 3' and antisense 5' UUUACCUACACCUGUAUCCdTdT 3'. FAM labeled siRNA was used to assess the efficiency of transfection. Cells which expressed green fluorescence stably were considered to successful transfection. The efficiency of transfection was more than 90% (Figure S1).
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10

Knockdown and Overexpression of Key Genes

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sh-MAPKAPK5-AS1 (shRNA#1,2,3) and sh-negative control (sh-control) lentiviruses were purchased from GeneCreate Biological Engineering Co., Ltd. (Wuhan, China). The expression vector pcDNA3.1(+) (MAPKAPK5-AS1) and the empty plasmid pcDNA3.1(+) (Vector) were obtained from Invitrogen Corporation (Carlsbad, CA, USA). Hsa-miR-154-5p mimic (miR10000452–1-5) and hsa-miR-154-5p inhibitor (miR20000452–1-5) were purchased from RiboBio (Guangzhou, China). PLAGL2 Human cDNA ORF Clone (PLAGL2) and PLAGL2 siRNA (si-PLAGL2) were purchased from Technologies, Inc. (USA). The HIF-1α siRNA was purchased from Shanghai GenePharma Co., Ltd. (Shanghai, China). Cell transfection was performed according to the manufactures’ instructions.
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