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Ht dna

Manufactured by Merck Group
Sourced in United States

The HT-DNA is a versatile lab equipment designed for high-throughput DNA analysis. It is capable of automated DNA extraction, purification, and quantification. The HT-DNA features advanced technology that enables efficient and reliable processing of multiple DNA samples simultaneously, making it a valuable tool for research and diagnostic applications.

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21 protocols using ht dna

1

Quantifying IFNβ Activation in Microglia

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BV2 IFNβ reporter microglia were stimulated with 0–10 µg of HT-DNA (Sigma) or cGAMP (InvivoGen) or 2 µg ml–1 0N4R tau fibrils. THP1-Dual and THP1-Dual KO-cGAS cells were stimulated with 0–10 µg of HT-DNA (Sigma). HT-DNA was delivered to cells using Lipofectamine 2000 (Thermo Fisher). Luciferase levels secreted in medium were measured using QUANTI-Luc (InvivoGen). Luminescence was measured on a BioTek Synergy hybrid reader.
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2

Immune Activation Protocol Reagents

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The following chemicals and drugs were utilized in this study: Talabostat/VbP (MCE #HY-13233A), Lipofectamine 2000 (Invitrogen #11668019), double-stranded alternating copolymer poly(dA:dT) (pdAdT) (Sigma #P0883), poly(I:C) (pIC) (Invivogen #tlrl-picw), HT-DNA (Sigma #D6898), double-stranded homopolymer poly(dA):poly(dT) (Sigma #P9764), poly(dG:dC) (Invivogen #tlrl-pgcn), PAM3CSK4 (Invivogen #tlrl-pms), nigericin (Sigma #N7143), diABZI (MCE #HY-112921B), ANS (MCE #HY-18982), H2O2 (Sigma #H1009), MG-132 (MCE #HY-13259), Bortezomib (MCE #HY-10227), MCC950 (Invivogen #inh-mcc), z-VAD-FMK (Santa Cruz #sc-3067), z-DEVD-FMK (Santa Cruz #sc-311558), H-151 (MCE #HY-112693), NAC (Sigma #A9165), KU-44933 (Santa Cruz #sc-202963), NU-7441 (Tocris #3712), Sorafenib (Sigma #SML2633), PLX-4720 (MCE #HY-51424), Doramapimod (MCE #HY-10320), SB-202190 (MCE #HY-10295), and RNA Polymerase III inhibitor (Sigma #557403). gDNA was isolated from the genomic DNA of HEK293T cells. ISD was synthesized from custom oligos as previously described (55 (link)). Recombinant IFNγ was purchased from Peprotech (#300-02). DNase I (Bio-Rad #7326828), S1 Nuclease (Thermofisher #EN0321), and RNase A/T1 Cocktail (Thermofisher #AM2286) were purchased from the indicated vendors. VACV Copenhagen strain WT and ΔF1L were a kind gift of John Bell (56 (link)) and titered by plaque assay.
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3

Cytokine Stimulation and Signaling Assay

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L929, BJ, THP1, and 293T cell were cultured in an atmosphere of 5% CO2 in RPMI-1640 or DMEM medium supplemented with 10% fetal bovine serum (FBS). THP1-lucia-IFNβ-ISG was purchased from Invivogen (California, USA) and cultured in an atmosphere of 5% CO2 in RPMI-1640 medium supplemented with 10% FBS after 55°C inactivated.
Transfection of HT-DNA (Sigma, St. Louis, Missouri, USA) and plasmid DNA (pcDNA-3.1-TBK1-Flag) into cells were performed by mixing 2 μg DNA with 6 μl Lipofectamine 2000 (Invitrogen, California, USA). cGAMP (Biolog, Flughafendamm, German) stimulation assay was performed as previously described (Wu et al., 2013 (link)). Briefly, cells were incubated at 37°C for 30 min with cGAMP in permeabilization buffer (50 mM HEPES, pH 7; 100 mM KCl; 3 mM MgCl2; 0.1 mM DTT; 85 mM sucrose; 0.2% BSA; 1 mM ATP, 0.1 mM GTP and 1μg ml-1 digitonin). Then, the permeabilization buffer was replaced with complete medium and cells were cultured for the indicated time.
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4

Viral Nucleic Acid Transfection in Immune Cells

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Viral nucleic acids or HT-DNA (Sigma-Aldrich, St. Louis, MO, USA) were transfected into MDDCs or PMA-differentiated THP1 using Lipofectamine 2000 (Thermo Fisher Scientific, Waltham, MA, USA) or in PHH and HepG2-hNTCP-derived cell lines using X-tremeGENE HP reagent (Merck, Darmstadt, Germany) according to the manufacturer’s instructions.
For MDDC transfection experiments (Figure 1), Table 3 indicates the copy number/cell of viral DNAs (DNA copy/cell, determined by qPCR) or of viral RNAs (expressed as cDNA-equivalent copy/cell, determined by RT-qPCR). The indicated copy numbers/cell refers to the undiluted nucleic acids. SeV RNAs, MVA-gfp DNA and HBV DNA from viral particles were quantified from undigested nucleic acid preparations. HBV DNA replication intermediates were quantified from RNAse-digested samples. HBV RNA from viral particles or from total HepAD38 RNAs were quantified from DNase-digested samples to avoid any DNA contamination, and a control without RT was performed.
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5

Cell Culture and Virus Propagation

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HEK-293T, BS-C-1, RK-13, and BHK-21 cells were grown in Dulbecco modified Eagle medium (Life Technologies) supplemented with 10% heat-inactivated fetal calf serum (FCS; Seralab) and 100 U/ml penicillin plus 100 μg/ml streptomycin (Pen/Strep; Life Technologies). THP-1-IFIT-1-GLuc cells were a gift from Veit Hornung (University of Munich, Munich, Germany). These cells had been modified to express GLuc under the control of the IFIT-1 promoter (26 (link)). THP-1-IFIT-1-GLuc cells were grown in RPMI 1640 (Life Technologies) supplemented with 15% FCS and Pen/Strep. PMA (Santa Cruz Biotechnology) was dissolved in dimethyl sulfoxide at 10 mg/ml. HT-DNA (Sigma) was dissolved in water at 2 mg/ml. 2′3′-cGAMP (Invivogen) was dissolved in water at 50 mg/ml. Sendai virus was a gift from Steve Goodbourn (St. George's University of London, London, United Kingdom). VACV strains MVA, vv811, COP, and WR, as well as CPXV strain Brighton Red, were obtained from Geoffrey L. Smith (University of Cambridge, Cambridge, United Kingdom). ECTV strain Moscow was from Antonio Alcami (Centro de Biología Molecular Severo Ochoa, Madrid, Spain). MVA was grown and titrated in CEF by conventional plaque assay. All other viruses were expanded in RK-13 or BS-C-1 cells and titrated in BS-C-1 cells. All viruses were purified through a 36% sucrose cushion before use.
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6

Protein A/G bead-based Immunoprecipitation

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Protein A/G magnetic beads (HY-K0202) and BLEB (HY-13813) were purchased from MedChemExpress (South Brunswick, USA). BeyoMag streptavidin magnetic beads (P2151), cell lysis buffer for Western and IP (P0013), 4’6-diamidino-2-phenyl-indole (DAPI, C1002), and Hoechst (C1011) were purchased from Beyotime. HT-DNA was purchased from Sigma-Aldrich (D1626, St. Louis, USA). Poly (dA:dT) was purchased from InvivoGen (tlrl-patn, Hong Kong, China). TRIzol reagent (15596018), Lipofectamine 3000 (L3000015), and Lipofectamine RNAiMAX (13778150) were purchased from Thermo Fisher Scientific (Waltham, USA). Phenylmethanesulfonyl fluoride (PMSF, CP8651) and cocktail protease inhibitors (SL1086) were purchased from Coolabor (Beijing, China). 2 × SYBR Green qPCR Master Mix (S2014S) was purchased from Singabio (Tianjin, China).
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7

mRNA Transfection and DNA Stimulation

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DNA plasmids pcDNA3.1(+):GFP or pcDNA3.1(+):IFI16 were used as templates for the in vitro synthesis of capped and polyadenylated mRNA using the mMESSAGE mMACHINE T7 Transcription Kit (ThermoScientific). IFI16 −/− HaCaT cells were seeded at 1 × 105 cells/ml on coverslips 24 h before transfection with 1 μg ml−1GFP mRNA or IFI16 mRNA for 6 h using using 1 μl ml−1 of Lipofectamine 2000 (Life Technologies). Cells were then stimulated with 5 μg ml−1 HT DNA (Sigma) for 1 h.
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8

Transfection of Innate Immune Ligands

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Transfections of 2′3′-cGAMP (Invivogen), htDNA (Sigma-Aldrich), and poly I:C (Sigma-Aldrich) were performed using Lipofectamine 2000 (Thermo Fisher Scientific) as previously described (Dobbs et al., 2015 (link)). After 6 h of treatment, RNA was isolated using Trizol (Sigma-Aldrich), and ISGs and IFN-β were measured via qRT-PCR.
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9

Investigating IRF3 Signaling Pathway

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Anti-p-IRF3 (ab76493) and anti-IRF3 (ab68481) were from Abcam; EGCG (E4143), RSVL (R5010) and HT-DNA (D6898) were from Sigma-Aldrich; Poly(I:C) (tlrl-pic) was from InvivoGen; Anti-G3BP1 (13057-2-AP) was from Proteintech Group; Plasmid DNA, used as the DNA stimulator, was an empty vector plasmid (pCDX-Tet-On) and amplified with PureYield Plasmid Midiprep System (A2492, Progema); Genomic DNAs were purified using StarSpin Animal DNA Kit (D111-01, GenStar); Anti-human cGAS and anti-human GAPDH antibodies were gifts from Dr. Tao Li at National Center of Biomedical Analysis, Beijing, China.
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10

Isolation and Stimulation of PBMCs

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PBMCs were isolated by Ficoll-Paque density gradient (Lymphoprep, Proteogenix) from the blood of patients and healthy donors. Fresh or cryopreserved PBMCs were used for the assays. Control PBMCs were obtained from the Etablissement Français du Sang blood bank. PBMCs were cultured at 37°C in 5% CO2 in RPMI 1640 GlutaMax medium (Invitrogen) supplemented with 10% (vol/vol) fetal bovine serum (GIBCO). PBMCs were treated with ruxolitinib 1 µM or BX795 2 µM. HEK 293T and 293FT cells (ATCC) were grown in 6-, 12-, or 96-well plates at 37°C in 5% CO2 in DMEM (GIBCO) supplemented with 10% (vol/vol) fetal bovine serum (GIBCO). Control and STING KO THP-1 monocytic cell lines were previously generated in the Manel laboratory (Cerboni et al., 2017 (link)). WT and cGAS KO THP-1 cells were from InvivoGen (THP1 Dual). MAVS KO THP-1 cell lines were recently generated in the Rehwinkel laboratory (Hertzog et al., 2020 (link)
Preprint). All THP-1 cell lines were cultured at 37°C in 5% CO2 in RPMI (Invitrogen) supplemented with 10% (vol/vol) fetal bovine serum (GIBCO). THP-1 cells were stimulated for 24 h with 1 µg/ml poly(I:C) (High Molecular Weight; InvivoGen), 1 µg/ml 2′3′cGAMP (InvivoGen), or 0.25 µg/ml HT-DNA (Sigma-Aldrich) combined with Lipofectamine 2000 (Invitrogen), following the manufacturer’s instructions.
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