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37 protocols using lipofectamine 3000 transfection

1

BRET Assay for GPCR Interactions

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HEK293T cells were seeded in 12-well plates and transfected with AVPR1A-hRluc alone or together with plasmids encoding EYFP or ACKR3-EYFP using the Lipofectamine 3000 transfection reagent (ThermoScientific). For BRET titration assays, AVPR1A-hRluc at the fixed amount of 50 ng was co-transfected with increasing amounts of EYFP or ACKR3-EYFP. For BRET assays at a constant acceptor : donor ratio, increasing amounts of AVPR1A-hRluc and ACKR3-EYFP were co-transfected at a ratio of 1 : 10. In all assays, empty vector pcDNA3 was added to maintain the total cDNA amount for each transfection reaction constant. After an overnight incubation, cells were seeded in poly-l-lysine coated 96-well white plates and incubated again overnight. Cells were then washed with PBS and fluorescence was measured in a Biotek Synergy II plate reader (λexcitation 485 nm, λemission 528 nm). For BRET measurements, coelenterazine H (Nanolight Technology) at 5 µM in PBS was added to the cells. After 10 min incubation at room temperature, luminescence was measured at 460 ± 40 and 528 ± 20 nm. The BRET signal is calculated as the ratio of RLU measured at 528 ± 20 nm over RLU at 460 ± 40 nm. The net BRET is calculated by subtracting the BRET signal detected when the AVPR1A-hRLuc was transfected alone. For titration experiments, net BRET ratios are expressed as a function of EYFP/total luminescence.
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2

Hcy/HTL Effect on WNT Signaling via TCF/LEF Assay

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A TCF/LEF reporter assay was used to examine the effect of Hcy/HTL on WNT‐induced transcriptional activity. First, 2.5 μg TOPFLASH (gifted from Dr. Tao Zhong's lab, Fudan University (Ni et al, 2011)) and 2.5 μg FOPFLASH plasmids (Millipore, Bedford, MA, USA; Appendix Table S6) were transfected in 1 × 106 NE4C cells using Lipofectamine® 3000 transfection reagent (L30075, Thermo Fisher, Waltham, MA, USA) for 48 h. Hcy/HTL was added in the culture medium 4 h before cell collection. Reporter activities were measured with a plate reader (LD400; Beckman Coulter, Fullerton, CA, USA) using a dual‐luciferase reporter assay system (Promega, Madison, WI, USA). TCF/LEF activity was defined as the ratio of TOPFLASH:FOPFLASH reporter activities.
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3

FTH1 Reconstitution in Breast and Lung Cancer Cells

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MCF7 shFTH1 and H460 shFTH1 cells were seeded in six-well plates at 3 × 105 cells/well and grown overnight prior to transfection.
All plasmids were transfected with Lipofectamine 3000 transfection reagent (Thermo Fisher Scientific) following manufacturer’s instructions. FTH1 reconstitution was performed using 2.5 μg/μl of the expression vector containing the coding sequence of human FTH1 cDNA (pcDNA3/FTH1) (MCF-7 shFTH1/pcDNA3FTH1 and H460 shFTH1/pcDNA3FTH1), while 2.5 μg/μl of pcDNA3 plasmid was used as negative control (MCF-7 shFTH1/pcDNA3 and H460 shFTH1/pcDNA3). Transfection efficiency was tested by western blot and qPCR after 48 hrs. All transfection experiments were repeated in triplicate.
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4

Piezo1 Knockout Cell Line Generation

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To generate Piezo1 knockout (KO) cell lines, single guide RNAs (sgRNAs) ACGCTTCAATGCTCTCTCGC targeting the second exon of mouse piezo1 as reference64 (link) was inserted into MLM3636 vector (Addgene Plasmid #43860). SgRNA inserted MLM3636 and Cas9 expression plasmid pX459 v2.0 (Addgene Plasmid #62988) were transfected into BV2 cells with Lipofectamine™ 3000 transfection reagent (L3000015, Thermo-Fisher Scientific). MLM3636 and pX459 v2.0 (Addgene Plasmid #62988) vectors were transfected into BV2 cells to create BV2-WT control cells. These two transfected BV2 cell lines were selected with 1ug/mL puromycin (A1113803, Life Technologies). After selection, live cells were trypsinized, diluted as 5 cell/mL and then seeded on 96-well plate at an average density of 0.5cell/well for growing to obtain single clones. The successful knockout clone was verified using Sanger sequencing, patch clamp and calcium imaging.
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5

Modulation of GLUT2 Promoter Activity

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HEK-293 cells were transiently transfected using the Lipofectamine™ 3000 transfection reagent (Thermo Fisher Scientific, USA) with the pGL3-GLUT2 and Renilla vectors with/without the CB1R-TK-d64 plasmid64 . One day following the transfection, cells were starved overnight in SFM and treated for 3 h with HG (30 mM) or CB1R agonist-ACEA (10 μM), with/without 1 h pretreatment with JD5037 (100 nM) or Rapamycin (100 nM). The Dual-Glo Luciferase Assay System (Promega, USA) was used to detect GLUT2 promoter transcriptional activity. The Relative Response Ratio (RRR) was calculated for each treatment and compared to the control group.
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6

Luciferase Assay for ARHGEF16 Regulation

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HepG2 cells were seeded in a 24-well culture plate. Plasmids of pGL3 basic or pGL3 basic-ARHGEF16 (0.75 µg) and pUB6/V5-HisB-Gli1 (0.25 µg), mixed with 0.025 µg pRL-TK-luc, were co-transfected into the cells using Lipofectamine™ 3000 transfection reagent (L3000015, Thermo Fisher Scientific, Inc.). The ARHGEF16 gene is a downstream target of Gli2 (8 (link)). This was conducted in triplicate, according to the manufacturer's instructions. After a 48-h transfection, the cells were treated with different concentrations of CH for 6 h. Cell lysates were extracted, and luciferase activity was measured using the Luciferase Report Assay System (E1910, Promega, Corp.).
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7

HOTAIR Knockdown in Cholangiocarcinoma Cells

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RBE and QBC939 were selected for the knockdown study, on the basis of the expression of HOTAIR in CCA cell lines. We cultured cells in serum-free medium and allowed them to grow to half confluence prior to transfected with si-HOTAIR using Lipofectamine 3000 transfection reagent (Thermo Fisher Scientific) for 48 h. The target sequences for si-HOTAIR are as follows: si-HOTAIR-1 sense 5′-UUCUAAAUCCGUUCCAUUCCACUGCGA-3′; antisense 5′-GCAGUGGAAUGGAACGGAUUUAGAA-3′; si-HOTAIR-2
sense 5′-AGCGAACCACGCAGAGAAAUGCAGG-3′; antisense
5′-CCUGCAUUUCUCUGCGUGGUUCGCUUU-3′. The sequence for negative control FAM is: sense 5′-UCUCCGAACGUGUCACGUTT-3′; antisense 5′-GUGACACGUUCGGAGAATT-3′.
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8

Transfection of pCAX APP Plasmid in SH-SY5Y Cells

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pCAX APPswe/ind plasmid, a gift from Dennis Selkoe & Tracy Young-Pearse (Addgene plasmid # 30145), was transfected in 75% confluent SH-SY5Y cells in a 6-well cell culturing plate. Transfection was conducted using Lipofectamine 3000 transfection reagent (ThermoFisher, Waltham, MA, USA) according to the manufacturer’s protocol.
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9

Knockdown and overexpression assays

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The LINC01605-, USP3- or IGF2BP2-specific shRNAs and sh-NC, pcDNA/LINC01605, pcDNA/Ikbkb and pcDNA, p65 expression vector and empty vector were provided by RiboBio (China). Moreover, miR-942-5p mimics, NC mimics, miR-942-5p inhibitor and NC inhibitor were purchased from GenePharma Cells Company. Lipofectamine 3000 transfection (L3000015, Thermo Fisher Scientific) was used for transfection for 48 h. The transfection efficiency of indicated plasmids was determined via RT-qPCR. Relevant sequences are listed in Supplementary file 1.
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10

Quantitative NanoBRET Assay for BRD4

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Nanoluc-BRD4 plasmids (Promega) were transiently transfected into HEK293T cells at 10ng DNA/well of 6 well plate, using Lipofectamine 3000 transfection reagent (Thermo Fisher) according to manufacturer's instructions. Following overnight incubation at 37°C, 5% CO 2 , cells were trypsinized, washed with PBS, and diluted into Opti-MEM (Gibco) at a density of 2x10^5 cells/ml and plated into 384 well plates (Greiner 781080-20). 50M stock BRD4 tracer was diluted into Tracer Dilution Buffer (Promega) and added to cells at a final concentration of 0.5M. Following a quick spin and mixing using a MultiDrop, compounds were dispensed using a TECAN D300e digital dispenser and incubated for 2 hours at 37°C, 5% CO 2 . Plates were brought to RT and complete NanoBRET Nano-Glo reagent was added to wells (1:166 Nano-Glo Substrate + 1:500 ENI). Plates were mixed, incubated briefly, and then read at 450nm (donor) and 610nm (acceptor) wavelengths on a Clariostar (BMG) plate reader.
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