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Tissue extraction buffer

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Tissue extraction buffer is a solution designed to facilitate the extraction and purification of biomolecules, such as proteins, from tissue samples. The buffer provides a controlled environment for the solubilization and stabilization of target analytes, enabling their efficient recovery and subsequent analysis.

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14 protocols using tissue extraction buffer

1

Quantifying PDK4 Protein Levels in Lung Tissue

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Western blot analyses were performed to evaluate PDK4 protein levels. Lung tissues excised from neonatal mice (<12 h old, n = 12) and adult male mice (8 weeks old, n = 12) exposed to normoxia or hyperoxia for 96 h were homogenized in tissue extraction buffer (78510; Thermo Fisher Scientific, Waltham, MA, USA). The lysates were clarified by centrifugation at 10,000 g for 5 min. Protein samples (50 μg) were separated using SDS/PAGE and transferred to membranes. The membranes were blocked and incubated with the anti-PDK4 primary antibody (1:500; ab172920; Abcam) or anti-β-actin antibody (1:5000; GTX26276; GeneTex, Irvine, CA, USA), followed by horseradish peroxidase (HRP)-labeled secondary antibodies. Chemiluminescence was detected using the Amersham ECL Prime Western blotting detection reagent (GE Healthcare, Chicago, IL, USA) with a digital imaging system (Bio-Rad ChemiDoc XRS+; Bio-Rad Laboratories, Hercules, CA, USA).
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2

Quantifying Corneal Neutrophil Infiltration

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Assessment of neutrophil infiltration was estimated as previously described by measurement of myeloperoxidase in corneas 24 hours after wounding 33. Mouse corneas were excised and dissected 24 hours after wounding, removing all residual iris and scleral tissues, and each cornea was incised radially. Individual corneas were placed in 0.3 ml tissue extraction buffer (Thermo Fisher Scientific, MA) containing 1:100 protease inhibitor cocktail (Sigma–Aldrich, P8340) and disrupted by sonication in 4× 30‐second bursts, with cooling on ice between bursts. The homogenate was centrifuged for 15 minutes at 14,000g at 4°C. Myeloperoxidase (MPO) activity was determined in 1:20 dilution of the homogenate using a fluorometric immunoassay (R&D Systems, DY3667, MN) according to the manufacturer. Each sample was analyzed in triplicate and MPO was calculated from a standard curve.
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3

Protein Extraction and Western Blotting

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Protein extraction and Western blotting were performed, as previously described.7 (link) Briefly, cells or tissues were subjected to tissue extraction buffer (Thermo Fisher Scientific) containing protease and phosphatase inhibitor cocktail (Roche) and disrupted by sonication. The protein content was quantified using a bicinchoninic acid assay (Thermo Fisher Scientific), normalized to 10 µg, and loaded on 4%-12% NuPage MES mini-blot pre-cast gels (Thermo Fisher Scientific). Transfer was performed using the iBlot2 system (Thermo Fisher Scientific) and imaged using an Odyssey FC digital acquisition system (LI-COR Biosciences). Antibodies and concentrations are specified in Table 2.
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4

Embryonic Drugging and Tissue Extraction

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Wild-type and transgenic embryos were subjected to drug exposure at 8 h post-fertilization (hpf). The chorion of each single embryo was manually perforated with a small needle before exposure to each treatment. EDA and GNF351 were dissolved in fish water at the reported concentrations, changing the medium after 24 h in the two-day treatments. After the treatments, larvae were euthanized with an overdose of Tricaine and their trunks were manually dissected using needles. After several washes in PBS, pooled trunk tissues were solubilized in Tissue Extraction Buffer (Thermofisher, Italy) containing protease and phosphatase inhibitors (Thermo Fisher Scientific, Italy). For fish transiently expressing the XRE-reporter transgene, we first removed the luciferase coding sequence from the PXRE3G5-FL plasmid [43 (link)] and cloned the eGFP coding sequence via HindIII and EcoRI digestion and ligation. We next microinjected one-cell-stage embryos with 500 pg/embryo and proceeded with the treatment as described above.
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5

Western Blot Analysis of Pyloric Tissue

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Pyloric tissues were stored at -80 °C until use. Pyloric tissue was homogenized in tissue extraction buffer (Thermofisher Scientific, Waltham, MA). The tissue lysates were then centrifuged for 15 min at 15,000 × g and the protein concentration of the supernatant was determined using a protein assay kit (Thermofisher Scientific). Equal amounts of tissue proteins were then separated by 10% SDS-PAGE gel and transferred onto a nitrocellulose membrane. After blocking the membranes with 5% non-fat milk diluted in buffer (10 mM Tris-HCl, 100 mM NaCl and 0.1% Tween 20) for 3 h at room temperature, specific proteins were probed with primary antibodies (anti-mouse ERα mAb (1:1,000 dilution), anti-rabbit AR pAb (1:100 dilution) or anti-mouse ERβ mAb (1:1,000 dilution)) for 4 h at room temperature. Actin antibody was used as a control and run on a separate gel from the target proteins due to image signal interference; IR-dye conjugated secondary antibodies (anti-mouse IRDye800 or anti-rabbit IRDye800) at a dilution of 1:20,000 were then added and incubated for 1 h at room temperature.
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6

Western Blot Analysis of Apoptosis and Inflammation

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Caspase-3 and nuclear factor-kappa B (NF-κB; p65) protein expression were analyzed by western blots to determine involvement of apoptosis and inflammation in neuroprotection. Cleaved caspase-3 is the biologically active form of intact caspase-3 and induces apoptosis. Brain tissue was homogenized in ice-cold tissue extraction buffer (Invitrogen, containing 1% protease inhibitor cocktail. Samples containing 20 μg protein were loaded into each well of NuPAGE precast 8–16% Bis-Tris gels (Invitrogen) (Lin et al., 2011). After electrophoresis, proteins were transferred to nitrocellulose membranes (Invitrogen). Membranes were blocked in NuPAGE blocking buffer (Invitrogen) and then incubated with primary antibodies, mouse anti-monoclonal antibody β-actin (1:10,000), NF-κB (p65) (1:5,000), and caspase-3 active form (1:5,000) (all Invitrogen), at room temperature for 2 hours. After washing, membranes were incubated with horseradish peroxidase-conjugated sheep anti-mouse antibody at room temperature for 1 hour and processed using ECL Western blotting detection reagents (GE Healthcare, Piscataway, NJ, USA). Protein bands were then imaged (Kodak Image Station 179 4000R station, NY, USA).
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7

Quantifying Inflammatory Markers in Colon Tissue

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Protein was isolated from colonic tissue by homogenization in tissue extraction buffer (Invitrogen, CA, USA) containing Protease Inhibitor Single-Use Cocktail (Sigma). Protein concentration was determined using bicinchoninic acid protein assay (Thermo Scientific, IL, USA).
MPO is a pro-inflammatory enzyme that is highly expressed in neutrophils22 (link). MPO concentrations were determined using the Colorimetric Activity Assay Kit (Sigma). Absorbance readings at 412 nm were compared to a standard curve and concentration was expressed as μmol/mg protein.
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8

Mosquito Gut Protein Detection

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Detection of LT and GAPDH was performed as previously described by Isoe J et al [20 (link)]. Guts from blood-fed female mosquitoes were homogenized in tissue extraction buffer (Invitrogen). Then, 10 μg protein was boiled in LDS (4×) NuPage sample buffer (Invitrogen) with 10× sample reducing agent (Invitrogen). For detection of LT, LT antibodies were used at a 1:200 dilution followed by the secondary anti-rabbit-HRP (Abcam) at a 1:5000 dilution. For detection of GAPDH, GAPDH monoclonal antibodies (Cell Signaling) were used at a 1:200 dilution followed by the secondary anti-mouse-HRP (Abcam) at a 1:5000 dilution.
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9

Examining eNOS Dimerization in Kidney

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As eNOS uncoupling is associated with disruption of eNOS dimers and increased monomerization of the enzyme, the
dimerization of eNOS in kidney tissue was examined. Frozen kidneys were homogenized with tissue extraction buffer (Invitrogen)
containing 1mM phenylmethylsulfonylfluoride (PMSF), 1X protease inhibitor cocktail at 4°C and centrifuged at 100,000rpm for
1 hour at 4°C in a Beckman Coulter Optima Max-TL ultracentrifuge (Beckman Coulter). The supernatants were collected and the
protein content was estimated using BCA reagent. Detection of eNOS dimer/monomer levels was performed using low temperature
SDS-PAGE (LT-PAGE) and western blotting as previously described.27 (link)
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10

Cerebral Protein Extraction and Analysis

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Protein lysates were obtained from the rat cerebral cortex, hippocampus, and cerebellum using Tissue Extraction Buffer (Invitrogen™) supplemented with proteinase inhibitors. The total protein yield was determined by Pierce Bradford assay (Pierce™ BCA Protein Assay Kit, ThermoFisher Scientific). Proteins were then transferred to membranes and immunoblotting was performed using the antibodies described in Supplementary Table 2.
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