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11 protocols using ehuegfp

1

Silencing KDM5A and LSD2 via siRNA

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For siRNA transfection studies, cells were allowed to grow at 60–80% confluency and transfected with 100 μM each of scrambled siRNA (EHUEGFP, esiRNAs, Sigma Aldrich) and siRNAs specifically targeting KDM5A (EHU0112051, esiRNAs, Sigma Aldrich) and LSD2 (EHU052581, esiRNAs, Sigma Aldrich) using 5 μl of lipofectamine 2000 (Invitrogen). After 6 hours, the culture medium was replaced with fresh medium to reduce the lipofectamine-mediated toxicity. Transfections were performed as per the manufacturer’s instructions in 6-well and 96-well plate. The cells were then cultured for 48 hours. After that, total RNA was isolated using TRIzol reagent and LSD2 and KDM5A mRNA levels were determined using real-time PCR.
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2

Knockdown of Genes in HCT116 Cells

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HCT116 cells were seeded in six-well culture plates (1.75 × 105 cells per well). After 24 hours, cells were transfected with 20 μM of esiRNA (Sigma-Aldrich) using TransITx2 system Mirus Bio (MIR2700, Thermo Fisher Scientific) following the manufacturer’s instructions. As a control, cells were transfected with esiRNA directed for GFP (EHUEGFP, Sigma-Aldrich). For each condition, cells were seeded as triplicates and collected for examination after 72 hours.
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3

Transfection of EGFP and IFITM3 siRNA

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Cells were transfected using Lipofectamine 3000 or RNAimax with 50nM esiRNA targeting EGFP (EHUEGFP, Sigma) or IFITM3 (EHU222801, Sigma) according to the manufacturers’ instructions. Cells were collected 72 hours after transfection.
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4

ATRA and siRNA Modulate Cell Proliferation

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For All‐Trans RA (ATRA, Sigma Aldrich) experiments, cells were treated for 48 hr with 0.1 mM of ATRA. For siRNA experiments, cells were transfected with 20nM of control nonspecific siRNA (EHUEGFP, Sigma) or with specific siRNA targeting ZYG11B (EHU022091, Sigma) using DharmaFECT™ Transfection Reagent following manufacturer's instructions (Dharmacon Horizon Discovery). Cell proliferation was assessed by Crystal Violet staining.
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5

Silencing ADAM10, ADAM17, AXL, and PSEN1 in PC-3 Cells

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Endoribonuclease-prepared small interfering RNA (esiRNA) oligonucleotides targeting human ADAM10 (EHU129311), ADAM17 (EHU075381), AXL (EHU081461), or PSEN1 (EHU073361) were purchased from Sigma-Aldrich. PC-3 cells growing on 12-well plates were transfected with esiRNAs at final concentrations of 25 nM using Lipofectamine 2000 (Thermo Fischer Scientific) according to the manufacturer’s instructions. EsiRNA against GFP (EHUEGFP; Sigma-Aldrich) was used as a control. Knockdown efficacy was determined by Western blotting and ImageStudio Lite v5.2 (LI-COR) software.
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6

EGFP and Mmp2 siRNA Transfection

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siRNAs for EGFP (EHUEGFP, Sigma) and Mmp2 (EMU04861, Sigma) were transfected using RNAiMAX transfection reagent (13778, Life Technologies) according to the manufacturer’s instructions.
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7

Silencing P2Y2 and KCa3.1 in SKOV-3 Cells

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SKOV-3 cells were plated at 4 × 104 cells per well in 24-well plates and allowed to attach overnight. Endonuclease prepared small interfering RNAs (esiRNAs) were commercially synthesized (Sigma-Aldrich, St. Louis MO, USA) using either 420 bp length of P2Y2 receptor (EHU156731; P2Y2-esiRNA) or 472 bp length of KCa3.1 channel gene (EHU035251; KCa3.1-esiRNA), targeting human sequences NM_002564 and NM_002250, respectively. Then, for P2Y2 receptor or KCa3.1 channel knockdown, cells were transfected with 150 ng per well of P2Y2-esiRNA or KCa3.1-esiRNA, respectively, by using Lipofectamine 3000 (Invitrogen, Grand Island NY, USA) to deliver esiRNA into the cells following the method indicated by the manufacturer. As a non-targeting control (referred to as CNT), was transfected in the same condition the esiRNA of enhanced green fluorescent protein (EHUEGFP, Sigma-Aldrich), all responses of transfected SKOV-3 cells with either P2Y2-esiRNA or KCa3.1-esiRNA were compared versus those of the CNT group. Twenty-four to 72 h after transfection, esiRNA-treated SKOV-3 cells maintained in culture were recorded electrically, or used for immunocytochemistry or fluorometric assays, as well as for migration quantification using the methods described above.
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8

Targeted Fibroblast Knockdown Assay

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Fibroblasts were transfected with following siRNAs: control siRNA targeting GFP (EHUEGFP, Sigma Aldrich), siRNA targeting WWTR1/TAZ (EHU08032, Sigma Aldrich), siRNA targeting YAP1 (EHU113021, Sigma Aldrich). Final siRNA amount used per well was 1pmol per well. Transfection complexes were prepared with Lipofectamine RNAiMax (Life Technologies) according to the manufacturer’s instructions. Transfection mixture was added to the bottom of the well and cells were plated on the top in 100 μl complete medium to perform reverse transfection. Fibroblasts were incubated 24h with the transfection complexes and then subjected to the experimental treatments.
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9

Knockdown of Murine and Human Gene Targets

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Mission esiRNAs targeting murine Smg7 (EMU150861), murine Pvt1 (EMU193181), murine Cyld (EMU031111), human SMG7 (EHU007301), and EGFP (EHUEGFP) were purchased from Sigma. Briefly, 5 × 104 MF or NIH 3T3 cells or 1 × 105 MCF‐7 cells in 500 µL medium were preseeded in 24‐well plates 1 day before. About 30 pmol siRNAs were mixed with 2 µL Lipofectamine RNAiMAX Transfection Reagent (Thermo Fisher Scientific) in 100 µL serum‐free medium, incubated at room temperature for 10 min, and directly added onto the cells. Seventy‐two hours after the transfection, cells were harvested or seeded for subsequent experiments.
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10

siRNA-mediated knockdown of human and murine genes

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Mission esiRNAs targeting human TMEM33 (EHU035611), EGFP (EHUEGFP), murine Tmem33 (Emu078331), murine Fads2 (EMU027741), murine Scd1 (EMU023031) and murine Hsd17b12 (EMU064031) were purchased from Sigma. 1.5 × 105 cells were typically seeded in six-well plates 1 day before. Prior to transfection, 200 ng of siRNA and 3 μl Lipofectamine RNAiMAX Transfection Reagent (Thermo Fisher Scientific) were mixed and incubated at room temperature for 15 min in serum-free media, then added dropwise on top of the cells. After 48 h transfection, cells were harvested for subsequent experiments.
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