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Dharmafect 1

Manufactured by Thermo Fisher Scientific
Sourced in United States, Germany, United Kingdom

DharmaFECT 1 is a cationic lipid-based transfection reagent designed for the delivery of small interfering RNA (siRNA) and other nucleic acids into a variety of cell types. It is formulated to effectively complex and deliver nucleic acids into the target cells for gene silencing and other applications.

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169 protocols using dharmafect 1

1

Transfection and qPCR Analysis of Cell Lines

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NIH 3T3 cells were purchased from ATCC and cultured in Dulbecco's Minimum Essential Media (high glucose), (Hyclone) supplemented with 4 mM l-Glutamine, 1 mM Sodium Pyruvate, and 10% BCS (CO serum company). Cells were transfected with 0.2 μl/well (96 well) Dharmafect I (Thermofisher Scientific) as per the manufacturers' instructions. Cells were harvested 48 h after transfection, and gene expression was analyzed using qPCR (Life Tech).
A549 cells (ATCC® CCL-185™) were maintained in F-12K Medium (ATCC® Catalog No. 30-2004) with 10% FBS and kept in a 37°C incubator with a 5% CO2 air atmosphere. Cells were transfected with 0.2 μl/well Dharmafect I (Thermofisher Scientific) as per the manufacturers' protocol. TGF-β was added at the time of transfection. Cells were harvested 24 and 48 h post-transfection, and RNA expression was analyzed using qPCR (Life Technologies).
LL 29 (AnHa) (ATCC ® CCL-134™) cells were maintained in Ham's F12K medium with 15% FBS and kept in a 37°C incubator with a 5% CO2 air atmosphere. Cells were transfected with 0.2 μl/well Dharmafect I (Thermofisher Scientific) as per the manufacturers' protocol. TGF-β was added at the time of transfection. Cells were harvested 24 and 48 h post-transfection, and RNA expression was analyzed using qPCR (Life Technologies).
Col1a1 Sense Strand: 5′- GCAAGACAGUCAUCGAAUA Col1a1 Antisense Strand: 3′- CGUUCUGUCAGUAGCUUAU
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2

Transfection and Cytokine Stimulation of INS1 Cells

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INS1 cells were transfected with miR-146a-5p miRIDIAN mimics (#C-300630-03, Thermo Scientific) or a negative control miR mimic (#CN-001000-01, Thermo Scientific) using DharmaFECT 1 (Thermo Scientific) as transfection reagent. All transfections had a final oligo concentration of 30 nmol/l. Cell medium was changed at the day of transfection to medium without antibiotics. In two separate tubes, OptiMEM (Invitrogen) was mixed with DharmaFECT-1 reagent and with synthetic oligos, and the two tubes were incubated for 5 min at room temperature. The contents of the two tubes were mixed 1:1 and incubated at room temperature for 20 min. The transfection solution was then diluted 1:5 with RPMI-1640 (Invitrogen) and added to the cells. The transfection medium was removed after overnight incubation at 37°C in a humidified atmosphere of 5% CO2. The cells were then incubated for at least another 24 h. Transfection efficiency was estimated to ~50% by co-transfection with a GFP expressing plasmid pMAX (Lonza). Furthermore, the expression level of the transfected miR mimic was examined as a transfection control. For evaluation of miR overexpression in combination with cytokine stimulation, cells were pre-treated with miR mimics for 48 h and then exposed to IL-1β (160 pg/ml) for 30 min or 6 h.
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3

Fibroblast Plexin B2 Silencing

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Dermal fibroblasts were transfected using Dharmafect 1 (Thermo Scientific). Plexin B2–specific or Sc nontargeting siRNAs (50 nM; Thermo Scientific) were mixed with Dharmafect 1 prior to transfection for 24 hours. Experiments were performed 48–72 hours after transfection. The efficiency of the silencing was >60% (Supplementary Figures 1C and D).
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4

RNA-Binding Protein Knockdown in FLS

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RA FLS were transfected using DharmaFECT1 (Thermo Scientific). The day before transfection, cells were incubated with DMEM containing 10% FBS which was then replaced with OPTI-MEM serum-reduced medium. AUF1, BRF1, BRF2, KHSRP, HuR and TTP specific small interfering RNA (siRNA) (20 nM) and control non-targeting siRNA (20 nM), (Thermo Scientific) were mixed with DharmaFECT1 and incubated for 20 min at room temperature prior to transfection; 24 h after transfection, medium was replaced with DMEM containing 10% FBS and this was left for another 24 h.
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5

Transfection of HUVECs with GRP78 siRNA

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HUVECs were trypsinized, counted, and diluted in antibiotic-free EGM-2 medium to 2.5×105 cells/ml for transfection with DharmaFECT 1 (Thermo Fisher Scientific, Lafayette, CO, USA), according to the manufacturer’s instructions. Briefly, HUVECs were plated into 100 mm dishes and incubated at 37°C with 5% CO2 overnight. One milliliter of 2 μM ON-TARGETplus SMARTpool siRNA (Thermo Fisher Scientific) against GRP78 diluted in 1×siRNA Buffer (tube-1) and DharmaFECT 1 (tube-2) diluted with serum-free medium were put in separate tubes, incubated for 5 min at room temperature, mixed together, and then incubated for 20 min at room temperature. The incubated mixtures of siRNA and DharmaFECT 1 were diluted in 8 ml of serum-free medium and subsequently added to the 100 mm dish with HUVEC monolayers. After 24 h, the transfection medium was replaced with complete medium containing FBS and growth factors. Two days post-transfection, HUVECs were split, and on the 4th day they were harvested or replated for other experiments.
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6

Cardiac Reprogramming Microarray Transfection

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Fibroblasts were seeded into 24 well plates at 9,000 cells per well. After 24 hours, the cells were transfected with transfection reagent alone (Dharmafect-I, ThermoScientific), with transfection reagent plus non-targeting microRNAs (negmiR), or with transfection reagent plus our previously reported combination of cardiac reprogramming microRNAs3 (miR combo, miR-1, miR-133, miR-208, miR-499) according to the manufacturer’s instructions. After 24 hours the transfection complexes were removed and the cells incubated in DMEM supplemented with 15%v/v FBS. Media was changed every two or three days [22 (link)].
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7

Transfection of Cells with DNA and siRNA

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Cells were transfected with MegaTran 1.0 (Origene) or XtremeGeneHP (Roche) for plasmid DNA or DharmaFECT I (ThermoScientific) for siRNA, using manufacturer’s protocols. The predesigned siRNAs were purchased from Dharmacon (ThermoScientific).
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8

Silencing of DNA Methylation Genes in INS-1 Cells

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Three genes selected from the DNA methylation and mRNA expression analyses were silenced in clonal INS-1 832/13 β-cells [93 (link)] by siRNA transfection with Dharmafect I (Thermo Scientific, Waltham, MA, USA) according to the manufacturer’s instructions. The siRNAs (LifeTechnologies, Paisley, UK) used were s132851 (Apln), s151310 (Nkap), s156923 (Bcl11a) and a negative control siRNA (5′-GAGACCCUAUCCGUGAUUAUU-3′). RNA was isolated 72 h post-transfection with the RNeasy Plus mini kit (Qiagen) and subsequently converted to cDNA with the RevertAid First Strand cDNA Synthesis kit (Thermo Scientific). Knockdown was verified by quantitative PCR with the following TaqMan assays (Life Technologies); Rn00581093_m1 (Apln), Rn01297610_m1 (Nkap) and Rn01434083_m1 (Bcl11a). Ppib (Cyclophilin B; Rn03302274_m1) and Hprt1 (Rn01527840_m1) were used as endogenous controls and quantification was done with the ΔΔCt method.
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9

siRNA Silencing of Antioxidant Genes in INS-1 Cells

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Genes were silenced by siRNA transfection into 832/13 INS-1 β-cells [142] (link) with Dharmafect I (Thermo Scientific, Waltham, MA) according to the manufacturer's instructions. siRNAs (LifeTechnologies, Paisley, UK) used were s151334 (Gpx7), s129302 (Gstt1), and s164019 (Snx19). RNA was isolated 72 h post transfection with the RNeasy Plus mini kit (Qiagen) and converted to cDNA with the RevertAid First Strand cDNA Synthesis kit (Thermo Scientific). Knockdown was quantified by qPCR with the following TaqMan assays (Life Technologies); Rn01416464_m1 (Gpx7), Rn00583932_m1 (Gstt1), and Rn01524775_m1 (Snx19). Assays for Cyclophilin B (Rn03302274_m1) and Hprt1 (Rn01527840_m1) were used as endogenous controls. Quantification was done with the ΔΔCt method.
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10

Optimized siRNA Transfection Workflow

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1.5 × 105 hTERT‐HPNE cells were plated into 6‐cm plates (Genesee) and allowed to adhere for 4‐h. siRNA was prepared according to manufacturer specifications (Horizon) and all siRNA used within this study are described in the Key Resources Table. Briefly, siRNA was diluted to 5 μM in RNase‐free water. For each reaction 4 μl of siRNA was mixed with 196 μl Optimem‐I (ThermoFisher, 31985070) to prepare tube A. Tube B contained 4 μl of Dharmafect‐I and 196 μl Optimem‐I. After 5 min, tubes A and B were mixed and allowed to incubate for 20 min at room temperature. Media were removed from cells, and 400 μl of siRNA mixture was added along with 1.6 ml growth media for a final volume of 2 ml with a final siRNA concentration of 10 nM. Unless otherwise specified all siRNA knockdowns were performed at 10 nM concentration. After 18‐h transfection, media were removed and replaced with fresh media. One more media exchange occurred at 48‐h post‐transfection. Functional assays (cell death, cell cycle) were performed 48‐h post‐transfection. siRNA knockdowns were validated by either western blot analysis or RT–PCR.
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