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141 protocols using fugene 6 reagent

1

Transfection of HepG2 and 293T Cells

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HepG2 cells (2 × 105) were seeded in 12-well plates coated with collagen. The cells were transfected with pHBV plasmid (0.4 µg/well) using Fugene 6 reagent (Promega, Madison, WI, USA). The ratio of Fugene (µL): plasmid (µg) was 3:1. MOV10 siRNA (catalogue number: L-014162-00) and non-targeting control siRNA (catalogue number: D-001810-10) were purchased from Dharmacon as pools of four siRNAs targeting distinct sites (SMARTpool siRNA). Non-targetting siRNA controls were used as they would induce the RNAi machinery, unlike an untransfected control. Cells were transfected using Lipofectamine RNAiMAX (Invitrogen, Carlsbad, CA, USA) following the manufacturer’s instructions. Human 293T cells were transfected with the indicated plasmids using Fugene 6 reagent (Promega, Madison, WI, USA). The ratio of Fugene (µL): plasmid (µg) was 3:1.
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2

Construction and Validation of siPrxIII in HepG2 Cells

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The small hairpin interfering RNA oligonucleotide sequences targeting human PrxIII [15 (link)] used to construct a pSUPER siPrxIII were purchased from Genotec (Daejeon, Korea), annealed, and cloned into the pSuperior-puro (pSUPER) vector. HepG2 cells were transfected with pSUPER_siPrxIII vectors using FuGene6 reagent (Promega, Madison, WI, USA). Single clones were grown and described after selection with 1.5 μg/mL puromycin.
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3

Culturing HeLa, N2a, and Primary Neurons

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Cervix epitheloid carcinoma (HeLa) and Neuro2a (N2a) cells were grown routinely in flasks or plates containing DMEM (Life Technologies) supplemented with 10% Foetal bovine serum (FBS) and 1% Penicillin/Streptomycin (Life Technologies) in a humidified incubator at 37 °C in 5% CO2. Culturing mouse primary cerebellar granule neurons was conducted as previously described [23] . Transfection was conducted using FuGENE 6 reagent (Promega) as per the manufacturer's instructions.
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4

Viral Particle Production in 293T Cells

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Virus containing media was collected from 293T packaging cells transfected using Fugene6 reagent (Promega) in complete DMEM supplemented with 10% fetal bovine serum or in DMEM/F12 supplemented with B27 (Gibco). 293T and SL2 cells were transfected using Fugene6 using the protocol from The RNAi Consortium (TRC) at the RNAi Platform of the Broad Institute of MIT and Harvard at http://www.broadinstitute.org/rnai/public/.
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5

Conditional Gene Knockdown in EpiSCs

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siRNAs (Supplementary Table S2) and plasmid DNA was transfected into EpiSCs using the Fugene6 reagent (Promega). Equal numbers of cells were seeded on 6-well plates and transfected within 4 h with the different siRNAs (100 pmol per well) or plasmid DNA (4 μg per well). siRNAs, plasmids and transfection reagent were diluted in CDM. Cells were harvested 36 h or 96 h post-transfection. Cells were stably transfected with the Cre recombinase expression vector pCAGGS-CreERT236 (link). Induction of recombination was carried out by adding 0.1 μg/ml Tamoxifen to the medium for three days.
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6

Viral Transduction of HEK293T Cells

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Retroviral or lentiviral constructs were transfected into HEK293T cells with their packaging vectors indicated below using FuGENE6 reagent (Promega). pMX-puro-STAT5A* (kindly provided by Toshio Kitamura, University of Tokyo): pCMV-Gag-Pol and pCMV-VSV-G; Plenti-EF-FH-TAZ-S89A: psPAX2 and pVSV-G; PLKO-NS and shTAZ lentiviral construct (kindly provided by Corinne Linardic, Duke University): pCMV-Rev, pCVM-VSVG; pMDL. Retroviral or lentiviral supernatants were collected and filtered 24 h and 48 h post-transfection. 1833 cells were incubated 48 h with retroviruses or lentiviruses medium in the presence of 8μg/mL Polybrene. Cells were cultured at least 3 days in 3μg/mL Puromycin or 5μg/mL Blasticidin for selection. Lentiviral shRNA-mediated knockdown of ABL1/ABL2 and expression of mouse Abl1/Abl2 were conducted as described previously (20 , 21 (link), 59 (link)). Lentiviral shRNA-mediated knockdown of STAT5A and STAT5B was conducted per manufacturer’s instruction (Dharmacon RHS4531-EG6776, EG6777).
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7

Cloning of Human RGS12 Isoforms

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Primers used to amplify three human RGS12 isoforms (GenBank accession NM_198229, NM_002926, and NM_198227) are listed in Table 2. Three RGS12 isoforms were cloned into pcDNA3.1/ V5-His-TOPO vector (Invitrogen, Carlsbad, CA, USA) containing CMV promoter. Constructs were sequenced and confirmed their accuracies before transfection into cells. The transfection was performed using Fugene 6 reagent (Promega, USA) and transfected cells were selected and maintained in media containing 200ug/ml G418.
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8

Measuring β-arrestin2 Recruitment by US28

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The recruitment of β-arrestin2 was measured using the PathHunter β-arrestin assay (DiscoverX) as described previously (Daugvilaite et al., 2017 (link)). Briefy, cDNA encoding US28wt was fused to the ProLink C-terminal protein tag and the small fragment ofβ-galactose and cloned into pcDNA3.1+. Assays were performed using the CHO-K1 EA-arrestin cell line with the stable expression of β-galactosidase coupled to the β-gal large fragment. Cells were seeded at 2 × 104 cells per well and transfected the next day with 50 ng DNA using Fugene6 reagent (0.15 µl per well, Promega, Madison WI). 48 hr post transfection cells were stimulated with various concentrations of the chemokine for 90 min (as positive control CCR5 transient transfected cells were included, stimulated with CCL5). β-arrestin2 recruitment was detected as β-gal activity using the PathHunter detection kit (DiscoverX). Chemiluminescent substrate composed of Galacton Star Substrate, Emerald II Solution and PathHunter Cell Assay Buffer in a ratio of 1:5:19, respectively, was added to the cells (50 µL per well). The luminescent signal was determined after 60 min incubation at ambient temperature using the EnVision Multilabel Plate Reader (PerkinElmer, Waltham MA).
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9

Overexpression of Atoh7 Transcription Factor

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Human embryonic kidney cells (HEK293T) were cultured in Dulbecco’s modified Eagle media (DMEM) supplemented with 10% fetal bovine serum (FBS) in a humidified 10% CO2. atmosphere at 37°C. Subconfluent cultures were co-transfected with 4 μg expression plasmid DNA, 1 μg pUS2-EGFP (control plasmid), and 25 μL Fugene6 reagent (Promega, Madison, WI) per 100 mm dish. Cell pellets were harvested 48 h after transfection, in PBS with protease inhibitors, and snap-frozen at −80°C. Human and mouse Atoh7 expression plasmids were pCS2-huATOH7, pCS2MT-huATOH7, pCS2-mAtoh7 and pCS2MT-mAtoh7, respectively (Prasov et al. 2010 (link)). The pCS2MT (myc tag) vector encodes 6 tandem N-terminal myc epitope motifs (EQKLISEEDL) (Rupp et al., 1994 (link); Turner and Weintraub, 1994 (link))
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10

Lentiviral Transduction of ABL and TAZ in NSCLC

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Lentiviral shRNAs against the ABL kinases (ABL1, ABL2 and AA double knockdown), N174-EV, N174-L1CAM, pLVX-Tet-On, and pLVX-TP-3F-TAZ4SA were packaged in 3rd generation lentiviral packaging vectors (pMDL, pCMV-VSV-G, pRSV-REV). For lentiviral expression of the TetO-FUW-ABL2PP plasmid and for shRNAs in the pLKO.1-puro backbone against non-target control (NTC), WWTR1 (TAZ) and AXL, 2nd generation lentiviral packaging vectors (pMD2.G and PSPAX2) were used. Briefly, 293T cells were transfected with packaging DNAs and corresponding DNAs using FuGENE6 reagent (Promega). Culture supernatants containing virus were harvested and filtered 24 hours and 48 hours after transfection and were added to NSCLC cell cultures in the presence of 8 μg/ml polybrene (Sigma-Aldrich) for a minimum of 6 h. Stably-transduced cells expressing N174-EV, N174-L1CAM, or pLVX-Tet-On vector were selected with G418 (100 ug/mL) for five days. Stably-transduced cells expressing TetO-FUW-ABL2PP, Tet-TAZ4SA or shRNAs cloned in the pLKO.1 backbone were selected with puromycin (1 μg/ml) for five days.
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