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43 protocols using mouse tnf α

1

Cytokine Profiling in Murine Kidneys

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Mouse TNF-α, IL-1β, IL-6, IL-4 and IL-10 ELISA kits (R&D Systems, Minneapolis, MN, USA) were used to determine the concentrations of these markers in kidney tissue homogenates. Briefly, 50μl of standard were added to the standard well, 10μl tissue homogenate and 40ul Sample Diluent was added to each sample well. For each well, horseradish peroxidase (HRP)-conjugated reagent was applied and incubated for 1 hour at 37°C. Tetramethylbenzidine (TMB) was added after washing. The chromogenic reaction was terminated with Stop Solution. Absorbance was measured at 450 nm with an iMark Microplate Reader (BIO-RAD, Japan). The BCA Protein Assay Kit was used to determine the total protein concentrations of the kidney tissue homogenates.
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2

Cytokine Quantification by ELISA and MSD

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Mouse IL-1β ELISA kits were obtained from BD Biosciences (catalog 559603) and Thermo Fisher Scientific (catalog 88-7013-88), and mouse TNF-α was obtained from R&D Systems (catalog DY410). Mouse IL-6 was obtained from Thermo Fisher Scientific (catalog 88-7064-88), and mouse IL-12 p70 was obtained from Thermo Fisher Scientific (catalog 88-7121-88). ELISAs were performed according to the manufacturer’s instructions. Meso Scale Discovery (MSD) assays were performed by the core biochemical assay laboratory of Cambridge University Hospitals. The detection limit of mouse IL-1β by MSD was 1.2 pg/mL.
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Cytokine Profiling in Murine Serum

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Mice serum samples were used to test for IL-6, IL-1b and TNF-α concentrations using the cytokine assay kit from R&D systems according to manufacturer’s instructions (Fluorokine MAP Mouse Base Kit Cat# LUM000, mouse IL-1b Cat# LUM401, mouse IL-6 Cat# LUM406, mouse TNF-α Cat# LUM410). Briefly, serum samples were thawed and cleared from debris by centrifugation at 1000 × g for 10 minutes prior to analysis. All samples or standards were added to a 96-well plate together with assay buffer, and cytokine beads. Plates were gently shaked for 3 hours at room temperature and spun as above. After removal of the supernatant, wells were washed. A detection antibody was added and the plates were incubated 1 hour at RT with shaking. Plates were rinsed and incubated with streptavidin-phycoerythrin for 30 minutes at RT. The wells were washed and the capture beads were re-suspended to acquire data using the Luminex 100 IS2.2 detection system. Cytokine standard curves were used to calculate the cytokine concentrations in serum samples [pg/mL].
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Murine Cytokine and Inhibitor Protocol

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Recombinant murine IL-1β was from BD Pharmingen and mouse TNFα from R&D. Antalarmin was a kind gift from Dr. Chrousos at NIH. All peptides used in this study were synthesized using BOC chemistry and provided by Dr. Jean Rivier (Salk Institute, La Jolla, CA). LY294002 and H89 were from Calbiochem (Billerica, MA).
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5

Anti-inflammatory Protocols and Reagents

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LPS (Escherichia coli LPS 0111:B4; #L4391), 2DG (#D8375), TSA (#8552), 3-phosphoglycerate (#P8877), 2-phosphoglycerate (#19710), and phosphoenolpyruvate (#860077) were obtained from Sigma (St. Louis, MO, USA). Shikonin (#CAS 517-89-5) was obtained from EMD Millipore Corporation (Billerica, MA, USA). Mouse TNF-α (#410-MT-010) and IFN-γ (485-MI-100) were obtained from R&D Systems (Minneapolis, MN, USA). Mouse anti-HMGB1 2G7 neutralizing antibody was a generous gift from Kevin J. Tracey (The Feinstein Institute for Medical Research, Manhasset, NY, USA)32 (link).
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Alisol F and 25-anhydroalisol F Isolation and Effects

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Alisol F and 25-anhydroalisol F were isolated from A. orientale by one of the authors (Q. Ma) using our previously-established method and provided with a purity of 98.0% determined by high-pressure liquid chromatography. Dulbecco’s Modified Eagle Medium (DMEM), fetal bovine serum (FBS), 0.25% trypsin, and penicillin-streptomycin-amphotericin (PSA) were purchased from Gibco BRL Co. Ltd. (Gaithersbug, MD, USA). Lipopolysaccharide (LPS) from Escherichia coli 055:B5, 3-[4,5-Dimethylthiazol-2-yl]-2,5-diphenyltetrazolium bromide (MTT), dexamethasone (DXM), d-galactosamine (d-gal) and Trizol reagent were obtained from Sigma Chemical Co. (St. Louis, MO, USA). The Griess reagent, the protein extraction kit and BCA protein assay kit were obtained from Beyotime Institute of Biotechnology (Beijing, China). Go Tag® qPCR Master Mix and GoScriptTM Reverse Transcription System were purchased from Promega (Madison, WI, USA). Rabbit polyclonal antibodies against inducible nitric oxide synthase (iNOS), COX-2, p-p38 (Thr180/Tyr182), p38, p-ERK1/2 (Thr202/Try204), ERK1/2, p-SAPK/JNK (Thr183/Tyr185), SAPK/JNK, p-p65 (Ser536), p65, GAPDH, p-IκB-α (Ser32), IκB-α, p-STAT3 (Tyr705), STAT3, goat-IgG HRP, and lamin B1 were purchased from Cell Signaling Technology (Danvers, MA, USA). Mouse TNF-α, IL-1β, and IL-6 ELISA kit were from R and D systems (Abingdon, UK).
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7

Dissecting Cell Death Pathways

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The antibodies used for immunoblotting included: mouse monoclonal antibody against GAPDH (RM2002, Beijing Ray, Beijing, China); rabbit monoclonal antibodies against HtrA2 (ab75982, Abcam, Cambridge, MA, USA), p-RIPK1 (65746, Danvers, MA, CST, USA), RIPK1 (3493, CST), p-RIPK3 (93654, CST), human p-MLKL (91689, CST), human MLKL (ab184718, Abcam), and mouse p-MLKL (ab196436, Abcam); rabbit polyclonal antibodies against RIPK3 (ab56164, Abcam) and mouse MLKL (ab172868, Abcam); and goat anti-mouse (R3001, Beijing Ray) or goat anti-rabbit (R3002, Beijing Ray) HRP-conjugated secondary antibody.
The antibodies used for IHC staining included: CD11b (ab133357, Abcam), S100a9 (73425, CST, USA), HtrA2 (ab75982, Abcam), MPO (ab9535, Abcam), and F4/80 (ab111101, Abcam).
Other reagents included: DSS (36,000–50,000 kD, MP Biomedicals, Santa Ana, CA, USA), UCF-101 (Cayman Chemical, USA), Nec-1s, BV-6, Z-VAD (Selleck, Houston, TX, USA), mouse TNF-α (R&D, Minneapolis, MN, USA), Cell Counting Kit-8 (CCK-8, MedChemExpress, Monmouth Junction, NJ, USA), FITC-dextran (4 kDa, Sigma, St. Louis, MO, USA).
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8

Oxidative Stress and Inflammatory Signaling Pathways

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Mouse TNFα was from R&D Systems. tert-butylhydroperoxide, hydrogen peroxide, cycloheximide, BMS-345541, and TSA were from Sigma. Doxorubicin hydrochloride was from Cayman Chemical. Propidium iodide and Hoechst 33342 were from Invitrogen. The following antibodies were used: anti-α-tubulin (3873), anti-HMGB1 (3935), anti-PARP (9532), anti-HO-1 (82206), anti-IKKβ (2678), and anti-HDAC3 (3949) were from Cell Signaling Biotechnology (Beverly, MA); Anti-p65 (sc-372), Anti-Nrf2 (sc-722), anti-NQO1 (sc-393736), anti-IκBα (sc-847), and anti-glyceraldehyde-3-phosphate dehydrogenase (GAPDH) antibodies were from Santa Cruz Biotechnology (Santa Cruz, CA).
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9

Cytokine-induced gene expression in islets

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Total RNA from fresh or cytokine-treated whole islets was isolated using RNeasy Plus Mini Kit (Qiagen). cDNA was prepared with random primers using SuperScript III reverse transcriptase (Life Technologies). For cytokine treatment, isolated islets were recovered overnight in islet media (DMEM containing 1gr/l glucose, 10% vol/vol FBS, 0.1% vol/vol Penicillin/Streptomycin), followed by 24-hr incubation with 10 ng/ml of either mouse IL-1β, mouse TNFα or mouse INFγ (R&D Systems), with the addition of Alk5 inhibitor II (1 µM, Axxora) or vehicle (DMSO) at the same dilution. Relative expression of Ucn3, Ins1, Nkx6.1, Pdx1, and FoxO1 was determined using gene-specific TaqMan probes with TaqMan Fast Universal PCR Master Mix (Life Technologies) on an ABI 7900 Real-Time PCR machine. Relative expression of mouse MafA was determined using Brilliant III Ultra-Fast SYBR Green QPCR Master Mix (Agilent) on the same machine. Primers for mouse MafA were 5′-AGCGGCACATTCTGGAGAG-3′ forward and 5′-TTGTACAGGTCCCGCTCCTT-3′ reverse. Levels of gene expression were normalized to the expression of Ubc or Eif2A genes.
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10

Western Blotting and Immunostaining of TNF-alpha Signaling

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Human TNFα (recombinant Human TNFα protein, P01375) and mouse TNFα (recombinant mouse TNFα protein, P06804) were purchased from R&D (Minneapolis, MN, USA). The antibodies used for western blotting were as follows: anti-TNF-R1 (C25C1) was from Cell Signaling Technology (Beverly, MA, USA), and anti-β-actin was from Santa Cruz Biotechnology (Santa Cruz, CA, USA). Antibodies used for immunofluorescence staining were VCAM-1 (551146), ICAM-1 (555511), and E-selectin (551145) (BD Biosciences, Franklin Lakes, NJ, USA). The antibodies used for immunohistochemistry staining were TNF-R1 (sc-8436, Santa Cruz Biotechnology, Santa Cruz, CA, USA), VCAM-1 (BA0406, Boster Biological Technology, China), ICAM-1 (WL02268, Wanleibio, China), and E-selectin (abs122144a, Absin, China).
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