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52 protocols using versadoc system

1

Extracellular Vesicle Protein Analysis

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Cell and tissue lysates were prepared as described previously (28 (link)). EV pellets were lysed in a non-reducing loading buffer. Primary antibodies against CD63 (1:500, AB0047, Sicgen), CD81 (1:250, Sc9158, Santa Cruz Biotechnology), Cx43 (1:2,500, AB0016, Sicgen), Calnexin (1:5,000, AB0041, Sicgen), phosphorylated and total p44/42 (1:500, 4377S and 9102, Cell Signaling Technology), Bax (1:250, Sc6236, Santa Cruz Biotechnology) and Bcl2 (1:250, Sc7382, Santa Cruz Biotechnology) were used, followed by incubation with horseradish peroxidase–conjugated secondary antibodies (1:10,000, Bio-Rad). Images were visualized in a VersaDoc system (Bio-Rad). Densitometric quantification was performed in unsaturated images using ImageJ.
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2

Ddx6 Protein Detection by Western Blot

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Cytoplasmic protein (50 μg) was dissolved in RIPA buffer (#182-02451, Fujifilm Wako), boiled for 10 min, electrophoresed through a 10% SDS polyacrylamide gel, and electroblotted onto a PVDF transfer membrane (#IPVH00010, Millipore, Billerica, MA, USA). The membrane was blocked with PBS containing 5% skim milk and 0.05% Tween 20 and incubated for 1 h with a Ddx6 antibody (#GTX102795, GeneTex Inc., Irvine, CA, USA) diluted 1:500 with blocking buffer. After washing, the membrane was incubated with a 1:5000 dilution of horseradish peroxidase-linked goat anti-rabbit IgG (#7074, Cell Signaling Technology, Inc., Danvers, Massachusetts, USA) in blocking buffer. Subsequently, the blots were developed using an enhanced chemiluminescence detection kit substrate (#1705060, Bio-Rad Laboratories Inc.), and the protein bands were visualized using a VersaDoc system (Bio-Rad Laboratories Inc.).
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3

Western Blot Protein Analysis Protocol

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Tissues were homogenized as previously described [13 ,14 (link)] and samples were loaded in 8% polyacrylamide gels, separated by SDS-PAGE and transferred to a PVDF membrane (Advansta, USA). Membranes were incubated with the specific primary antibodies overnight at 4 °C (listed below), and then incubated 2 h at room temperature with secondary antibodies. The secondary antibodies were anti-mouse (GE Healthcare, UK), anti-rabbit and anti-goat (Bio-Rad, USA). Membranes were revealed using ECL substrate in a Versadoc system (Bio-Rad, USA) and analysed with Image Quant® (Molecular Dynamics, USA).
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4

Liver Protein Analysis and Quantification

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Liver (100 mg) (n = 5 − 6) was homogenized and assayed as before [11 (link), 12 (link)]. The secondary antibodies were anti-mouse (GE Healthcare, UK), anti-rabbit, and anti-goat (Bio-Rad, USA). Membranes were revealed using ECL substrate in a VersaDoc system (Bio-Rad, USA) and analysed with ImageQuant® (Molecular Dynamics, USA).
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5

Protein Expression Analysis in Tissues

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Tissues were rapidly sampled in liquid nitrogen and stored at −80 °C before analysis. Whole cell extracts from tissues were lysed in standard lysis buffer at 4 °C. Aliquots of 30 μg proteins were separated by 9%-SDS polyacrylamide gel electrophoresis and transferred to PVDF Immobilon membranes (Millipore). The membranes were probed with antibodies diluted in TBS/0.2% Tween/5% BSA against TH, pAkt Ser473, Akt, pSTAT3 and STAT3 (dilution 1:2000, Cell Signaling) and then with goat secondary anti-rabbit IgG linked to peroxidase (dilution 1:10 000, Biorad). The intensity of the spots was determined by densitometry with the VersaDoc™ system (Biorad) and analyzed using the Quantity One® software (Biorad).
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6

Western Blot Analysis of Protein Expression

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Western blot analysis was performed to investigate protein expression. Cells cultured in 6-well plates were washed with PBS twice and harvested on the floor of the plate. Cells were lysed using radioimmunoprecipitation assay lysis buffer (Sigma-Aldrich; Merck KGaA) supplemented with a protease inhibitor cocktail (Roche Diagnostics, Indianapolis, IN, USA). Cell lysates were centrifuged at 13,000 × g for 15 min at 4°C and protein concentration was determined with a BCA assay. Samples (10 µg protein) were loaded onto 10% SDS-PAGE gels. Gel proteins were electrophoretically transferred to polyvinylidene difluoride membranes (PVDF; Thermo Fisher Scientific, Inc.). Membranes were blocked with 3% non-fat dried milk in PBS at 4°C overnight. Subsequently, PVDF membranes were incubated with specific primary antibody solutions against antigens for 24 h at 4°C. Detection of the primary antibodies was performed using secondary, horseradish peroxidase-conjugated antibodies (Santa Cruz Biotechnology, Inc.). Details of the antibodies used have been provided earlier in the manuscript. Finally, the antigen-antibody complexes were visualized by a Pierce ECL Western Blotting Substrate (Thermo Fisher Scientific, Inc.; cat. no: 32106) and quantitated using the Versa DOC system and Quantity One software (#1709600; Bio-Rad Laboratories, Inc., Hercules, CA, USA).
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7

Immunoblot Analysis of Echinococcus Antigen B

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Aliquots of 100 μl of individual E. granulosus HF samples were resolved on SDS-PAGE 12% and electrophoretically transferred onto a nitrocellulose membrane. A pool of rabbit polyclonal antibodies raised against each recombinant AgB subunit (AgB8/1 to 5) were used at 1:70.000 dilution as primary antibody. The pool of antibodies corresponds to the IgG fraction of each subunit specific serum purified using HiTrap ProteinG HP columns (GE Healthcare), according to the manufacturer's protocol. A horseradish peroxidase-conjugated goat anti-rabbit IgG (GE Healthcare) diluted at 1:7.000 was used as the secondary antibody. Blots were developed using the chemiluminescent reagent ECL Plus (Pierce, ThermoScientific) and imaged in VersaDoc system (BioRad). HF samples with higher AgB content were used for the protein purification step (S1A Fig).
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8

Western Blot Analysis of Cos-7 Cells

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For Western blot analysis, 1 × 106 Cos-7 cells were seeded in 6-well plates during 24 h and then treated with EA-Aa (500–1,000 μg·mL−1) for 24 h. After, cells were washed with ice-cold PBS, disrupted in lysis buffer (0.25 M Tris-HCl, 125 mM NaCl, 1% Triton-X-100, 0.5% SDS, 1 mM EDTA, 1 mM EGTA, 20 mM NaF, 2 mM Na3VO4, 10 mM β-glycerophosphate, 2.5 mM sodium pyrophosphate, 10 mM PMSF, and 40 μL of protease inhibitor), subjected to three freeze/thaw cycles in liquid nitrogen, and centrifuged (14,000 rpm, 20 min, 4°C). Protein concentration of the supernatant was measured through the BCA Protein Assay Kit [41 (link)], and the samples were mixed with Laemmli buffer (62.5 mM Tris-HCl, 10% glycerol, 2% SDS, 5% β-mercaptoethanol, 0.01% bromophenol blue). An amount of 15 μg of total protein was loaded onto 8% SDS-PAGE, solved and electroblotted onto PVDF membrane. A rainbow marker was used as a standard weight protein marker. Membranes were blocked with TBS-T 0.01% and 5% BSA and incubated with primary antibody (against Sirt1, ERK, phospho-ERK [Thr202/Tyr204], Nrf2, phospho-Nrf2 [Ser40], and catalase) overnight and with secondary antibodies (anti-rabbit, anti-mouse, and anti-goat) for 2 h at room temperature. Calnexin was used as the loading control. Immunoblots were detected with an ECL substrate and the Versadoc system (Bio-Rad Laboratories, USA).
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9

Quantitative Western Blot Analysis of Proteins

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Protein expression was determined by performing Western blot analysis [32 (link)]. Whole-cell lysates or membrane fractions were separated by 10% Tris-Glycine SDS-PAGE. Following proteins electrophoretic transfer into nitrocellulose membrane, blots were blocked with 5% skim milk in TBS-T buffer (5% Tween 20) for 1 h. Primary monoclonal antibodies against TNFα, β-actin, Na+K+ATPase (Sigma-Aldrich, St. Louis, MO, USA), and CB1 and CB2 (Santa Cruse Biotechnology, Santa Cruz, CA, USA) were used at a concentration of 1:1000. The host of antibodies against TNFα and β-actin was mouse, while in the case of CB1, CB2 and Na+K+ATPase, the host was rabbit. Secondary antibodies labeled with alkaline phosphatase were used at a concentration of 1:1000 (Sigma-Aldrich, St. Louis, MO, USA). Protein bands visualization was made using the BCIP/NBT Liquid substrate system. The Versa Doc System and Quantity One software (Bio-Rad Laboratories Inc., Hercules, CA, USA) was applied for bands quantification. Level of each protein was expressed as the percentage of the protein intensity obtained in the control cells.
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10

Western Blot Protein Analysis Protocol

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Tissues were homogenized as previously described and samples were loaded in 8% polyacrylamide gels, separated by SDS-page, and transferred to a PVDF membrane (Advansta, San Jose, CA, USA). Membranes were incubated with the specific primary antibodies overnight at 4 °C (listed below), and then incubated for 2 h at room temperature with secondary antibodies. The secondary antibodies were anti-mouse (GE Healthcare, Chicago, IL, USA, EUA) and anti-rabbit (Bio-Rad, Des Plaines, IL, USA). Membranes were revealed using ECL substrate in a Versadoc system (Bio-Rad, Des Plaines, IL, USA) and analyzed with Image Quant® (Molecular Dynamics, Sunnyvale, CA, USA).
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