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Sds page

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SDS-PAGE is a laboratory equipment used for the separation and analysis of proteins based on their molecular weight. It is a widely used technique in biochemistry, molecular biology, and protein research.

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17 protocols using sds page

1

Protein Extraction and Western Blot

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For protein extraction, cells were collected by scraping in cold PBS, washed with cold PBS, and then lysed in RIPA buffer (Wako, Japan) containing a protease inhibitor cocktail (Sigma, P8340) for 20 min on ice; the resulting lysate was cleared by centrifugation at 10,000×g and 4 °C for 10 min. The protein content was quantified by a BCA assay (Thermo Scientific), and equal amounts of protein from each sample were separated by SDS–PAGE (Wako, Japan) and transferred to a PVDF membrane (Bio–Rad). GAPDH was used as the loading control for normalisation. Bands were visualised using ImageQuant LAS4000 (GE technology). Images of western blots were obtained using ImageJ.
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2

Tau Insolubility Analysis in Brain Tissue

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200–500 mg samples of frozen frontal and temporal cortex were dissected from selected tau-immunopositive cases (see later) and subjected to western blot analysis of insoluble tau, as we have described elsewhere [32 ]. Briefly, sarkosyl-insoluble pellets were prepared by homogenization of tissue samples in 20vol (v/w) of extraction buffer containing 10 mM Tris–HCl (pH 7.5), 0.8 M NaCl, 10 % sucrose, 1 mM EGTA, 2 % sarkosyl and incubated for 30 min at 37 °C. After centrifugation at 20,000 g for 10 min at 25 °C, the supernatants were taken, transferred to 1.5 mL tubes and ultracentrifuged at 100,000 g for 20 min at 25 °C. The pellets were washed by ultracentrifugation with 0.5 mL of sterile saline, solubilized in SDS-sample buffer and subjected to 4–20 % gradient polyacrylamide gel (Wako) SDSPAGE. Proteins were transferred to PVDF membrane, incubated overnight with the anti-tau monoclonal antibody T46 (Thermo Scientific), biotinylated 2nd antibody, avidin–biotin complex (Vector) and developed with diaminobenzidine and nickel chloride.
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3

Western Blot Analysis of Cell Lysates

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Cells (5 × 106) were washed once with PBS (without calcium) and sonicated in cold buffer (20 mM Tris, 2.5 mM Sodium Pyrophosphate, 150 mM NaCl, 1 mM Disodium β-Glycerophosphate Pentahydrate, 1 mM ethylenediaminetetraacetic acid, 1 mM 14-bis[(acetyloxy)methyl] ester, 1% Triton-X) for 5 min. The lysates were clarified by brief centrifugation (10,000 × g), and the supernatant was used for analysis. After measuring protein concentrations with a protein assay kit (Bio Rad, Richmond, CA), 20 μg protein of each sample was mixed with an equal volume of SDS-loading buffer (100 mM Tris-Cl pH 6.8, 4% sodium dodecyl sulfate, 0.2% bromophenol blue, 20% glycerol, 2% β-mercaptoethanol), boiled for 5 min, and subjected to SDS-PAGE (Wako, Japan). The separated proteins were transferred onto a PVDF membrane (Millipore, Billerica, MA) that was incubated with 1:1,000-diluted primary antibody and then with HRP-conjugated anti-mouse or anti-rabbit antibody (Cell Signaling Technology) as recommended by the manufacturers. Primary antibody binding was detected using a West Pico chemiluminescent substrate kit (Pierce, Rockford, IL), and images were captured by a CCD camera (Fuji Film, Tokyo, Japan).
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4

Gastric Mucosa Protein Quantification

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Aldosterone levels in serum were determined using a ELISA kit from ENDOCRINE (USA).
Western Blotting
Gastric mucosa samples were homogenized in protein lysis/sample buffer (RIPA buffer: 50 mM Tris, pH8.0, 0.1% sodium dodecyl sulfate, 1% Nonidet P-40, 0.5% deoxycholate, 150 mM NaCl, 1 mM PMSF) containing a protease inhibitor and proteasome inhibitor and centrifuged (15,000 rpm, 20 min), and the resultant supernatants used as protein lysates. The concentration of protein was measured with protein assay kit (Bio-rad, USA) followed by SDS-PAGE (Wako, Tokyo, Japan). After transfer to a polyvinylidene difluoride membrane, immunoblotting was performed according to the manufacturer’s protocol (Cell Signaling Technology).
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5

Protein Extraction and Immunoblotting

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Cells were harvested 24 h after exposure to the radiation doses indicated. For protein extraction, cells were scraped and washed with cold PBS, then lysed in RIPA buffer (Wako, Japan) containing a proteinase inhibitor cocktail (Sigma, P8340) for 20 min on ice and cleared by centrifugation. The protein samples were quantified by a BCA assay (Thermos), separated by SDS-PAGE (Wako, Japan), transferred to a PVDF membrane (Bio-Rad), and detected by immunoblotting with the antibodies indicated (Supplementary Table 4). More specifically, the blots were detected with ECL reagent (GE Healthcare, RPN2232) and visualised by ImageQuant LAS 4000mini (GE). Relative quantification was performed using ImageJ software, and GAPDH was used as the reference for normalisation.
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6

Protein Extraction and Immunoblotting Protocol

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Cells were harvested 24 h after exposure to the radiation doses indicated. For protein extraction, cells were scraped and washed with cold PBS, then lysed in RIPA buffer (Wako) containing a proteinase inhibitor cocktail (P8340; Sigma) for 20 minutes on ice and cleared by centrifugation. The protein samples were quantified by a BCA assay (Thermos), separated by SDS‐PAGE (Wako), transferred to a PVDF membrane (Bio‐Rad), and detected by immunoblotting with the Abs indicated (Table S2). More specifically, the blots were detected with ECL reagent (RPN2232; GE Healthcare) and visualized by ImageQuant LAS 4000mini (GE). Relative quantification was undertaken using ImageJ software, and GAPDH was used as the reference for normalization.
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7

Western Blot Protein Analysis Protocol

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Cells were lysed with 1× RIPA Buffer. Lysates (25 μg) were separated by sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE, Wako Pure Chemical Industries, Ltd., Osaka, Japan) and transferred to polyvinylidene difluoride (PVDF) membranes (GE Healthcare, Little Chalfont, UK). The membranes were incubated with the primary antibodies and then with a corresponding secondary horseradish peroxidase (HRP)-conjugated IgG. Proteins were visualized with an electrochemiluminescent system (PerkinElmer, Waltham, MA, USA).
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8

Quantifying Acetylated Tubulin Protein

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Measurement of acetylated tubulin protein was commenced by incubating cells in a 10 cm dish before treating with single drugs, or a combination of drugs, in a different sequence for a total of 48 h. On ice, we then applied cell lysis buffer (Cell Signaling Danvers, MA, USA) containing proteinase inhibitors (Roche Applied Science, Indianapolis, IN, USA) to detach cells, aided by manual scraping. An equal amount of extracted protein was then separated by sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS-PAGE; Wako, Osaka, Japan) and transferred onto nitrocellulose membranes. After blocking, membranes were incubated with a 1:100,000 dilution of primary antibody (anti-acetylated tubulin) overnight at 4 °C. Blotted protein samples were then detected with an enhanced chemiluminescence kit from Thermo Fisher Scientific (Waltham, MA, USA).
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9

Purification and Characterization of QnrB19

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Purification of the QnrB19 protein [16] (link) was conducted as follows. E. coli BL21 (DE3)/pLysS carrying qnrB19 in plasmid vector pET-28b(+) was cultured at 37 °C in 500 mL of Luria-Bertani and 50 mM arginine] as previously described [17] (link), and concentrated using Millipore Amicon Ultra tubes (Merck Millipore Ltd., Burlington, MA). After purification, the eluted fractions were combined using glycerol to a concentration of 40% (wt/vol) and kept at -80 °C until further use.
The quality and quantity of purified protein was analyzed by sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS-PAGE: Wako Pure Chemical Industries Ltd.).
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10

Quantitative Western Blot Analysis

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A total of 5 × 105 cells were plated onto 6-well plates and lysed with 1 × RIPA Buffer (25 mM Tris-Hcl pH 7.6, 150 mM NaCl, 1% NP-40, 0.1% SDS, 1% sodium deoxycholate, 1 mM PMSF, protease inhibitor cocktail; 1:100 [Nacalai Tesque, Inc., Kyoto, Japan]). Lysates (15 μg) were separated by 10% or 5–20% gradient sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE; Wako Pure Chemical Industries, Ltd., Osaka, Japan), and transferred to polyvinylidene difluoride membranes, followed by incubation with the primary antibodies (PAI-1, 1:200; uPAR 1:1000; PARP, 1:1,000; CDK2, 1:500; Cyclin D3, 1:2,000; p27 kip1, 1:500; p-ERK 1/2, 1:1,000; ERK1/2, 1:1,000; p-FAK, 1:1,000; FAK 1:1,000; Integrin αV, 1:250; Integrin β3, 1:2500; β-actin, 1:2,000) in TBS-T containing 20% Bullet Blocking One (Nacalai Tesque) and then with a corresponding secondary horseradish peroxidase-conjugated IgG. The proteins were visualized with an electrochemiluminescent system (PerkinElmer, Waltham, MA, USA).
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