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63 protocols using bradford s reagent

1

Caspase-3 Activity Assay in Cancer Cells

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Caspase 3 activity was determined using fluorometric assay kits (ThermoFischer Scientific, Hanover Park, IL, USA), according to the manufacturer’s protocol. HCT116 or MDA-MB-231-Luc cells were cultured for 24 h for 80–90% confluence and then treated with DOX (100 nM), COS (30 μM), COS + DOX, COS-NPs (30 μM), or COS-NPs + DOX, in each flask for proliferative cells. The treated cells and respective controls were trypsinized and the cell pellet was lysed with a cell culture lysis reagent. The lysed pellet was then centrifuged at 10,000× g for 30 min, and protein concentrations were measured with Bradford’s reagent (Bio-Rad Laboratories, Hercules, CA, USA), using albumin as a standard. A total of 5 μL cell lysates (0.5 mg/mL) were added to 195 μL of buffer containing an Ac-DEVD-7-amino-4-methyl coumarin (AMC)-conjugated substrate for caspase 3 and followed by 30-min incubation at 370C in the dark. The concentration of the released AMC was calculated from the fluorescence intensity, which was read using a fluorescence plate reader with the excitation and emission wavelengths of 342 and 441 nm, respectively, and using AMC standard to calculate caspase 3 activity. Data were adjusted according to the protein content.
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2

Western Blot Analysis of Protein Expression

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Cultured cells or tissues were harvested and lysed with RIPA lysis buffer (Beyotime, China) for 30 min on ice. After centrifugation at 12,000 g for 20 min, the concentration of proteins was measured using Bradford's reagent (Bio-Rad laboratories, USA). The protein samples were denatured by boiling for 10 min and loaded onto SDS–PAGE gel for electrophoresis. The proteins were transferred onto PVDF membrane (Millipore, USA) which was then incubated in the blocking solution (5% FBS) at room temperature for 1 h. The anti-REPS2 antibody (Abcam, UK) or anti-RalBP1 antibody (Santa Cruz, USA), anti-RAC1 antibody (GeneTex, USA), anti-CDC42 antibody (GeneTex, USA), anti-MMP9 antibody (Proteintech, USA), anti-MMP2 antibody (Proteintech, USA), anti-cyclinD1 antibody (Abcam, UK), anti-EGFR antibody (Abcam, UK), anti-pEGFR antibody (Abcam, UK), anti-AKT antibody (Abcam, UK), anti-pAKT antibody (Abcam, UK), anti-Erk antibody (Abcam, UK) and anti-pErk antibody (Abcam, UK) was added into blocking solution and incubated at 4°C overnight. The membranes were subsequently incubated with HRP-labeled goat anti-rabbit IgG for 1.5 h at room temperature. Protein expression was normalized against GAPDH expression (RD, USA) or β-actin expression (Bioworld, USA). Bands were visualized by employing the BeyoECL Plus DetectionSystem (Beyotime, China) and Bio-Rad Image Lab Software (CA, USA).
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3

Cytokine Profiling in Skin Tissue

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The cytokine levels were measured by ELISA assay in skin tissue samples. Briefly, skin tissues were homogenized with Tris–HCl buffer with protease and phosphatase inhibitors and centrifuged at 12,000 rpm at 4℃ for 10 min. The supernatant from all tissues were collected and protein estimation was done by Bradford’s reagent (Biorad, USA). Polystyrene 96 well plates were coated with TGF-β, IL-17A, IL-22, IL-1β, and IL-6 along with 100 µl of antibodies diluted with coating buffer and incubated at 4℃ overnight. Later excessive and unbound antibody was removed by washing buffer and further blocked with BSA. Further 100 µl of the tissue supernatant was incubated followed by the addition of detection antibody for 1 h at room temperature. Later, 100 µl of Avidin-HRP solution was added per well and incubated for 30 min. Then 100 µl of trimethylbenzidine solution per well for 15 min and measured absorbance at 450 and 570 nm, reaction was terminated by 1 M H3PO4. The difference between absorption was calculated and protein estimated in pg/mg.
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4

Quantification of Proteins in Villous Tissue

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Total proteins for Western blotting were obtained from villous tissue using a standard differential centrifugation protocol and suspended in isolation medium (0.25 M sucrose and 1 mM EDTA, pH 7.4) supplemented with protease and phosphatase inhibitor cocktail (Sigma). Total protein concentrations in the fraction were determined using Bradford's reagent (Bio-Rad Laboratories). Total proteins (25 μg) were separated on 4–20% precast linear gradient gels (Bio-Rad Laboratories), transferred to nitrocellulose membranes and blocked with 5% (w/v) nonfat milk in TBST for 1 h. Membranes were incubated overnight at 4°C with primary antibody diluted in 1% nonfat milk (w/v) in TBST and detected using an appropriate peroxidase conjugated secondary antibody. Products were visualized by ECL chemiluminescence (Millipore). Band intensities were measured using the G-box system (Syngene).
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5

Leaf Protein Extraction by Phenol Method

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Protein extraction from leaf samples was performed by the phenol method of Isaacson et al. (2006 (link)). Leaf material (2 g) was ground to fine powder using liquid nitrogen and suspended in 10 ml of extraction buffer containing 4-(2-hydroxyethyl)-1-piperazineethanesulfonic acid (HEPES), β-mercaptoethanol, sucrose and phenylmethanesulfonylfluoride (PMSF). 15 ml of Tris-HCl saturated phenol was added and the solution was mixed in a rocker for 30 min and subjected to centrifugation at 5000 rpm for 10 min at 4°C. The upper phenolic phase was carefully recovered in a separate tube and incubated overnight at −20°C for precipitation after adding 15 ml of ice-cold 0.1 M ammonium acetate-methanol solution. The proteins were pelleted by centrifuging at 10,000 rpm for 15 min at 4°C. Protein pellet was washed twice with ice-cold methanol followed by washing with chilled acetone. The resulting pellet was centrifuged at 5000 rpm after each washing, dried and solubilised in buffer containing 2 M thiourea, 7 M urea, 4% (w/v) CHAPS, 50 mM DTT. The protein was quantified using Bradford's reagent (Bio-Rad, USA).
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6

Neutralizing N. kaouthia Neurotoxin with HuScFv

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O. hannah holovenom and horse-derived monospecific N. kaouthia antivenin (purified equine F(ab)’2) were obtained in lyophilized form from the Queen Saovabah Memorial Institute (QSMI). The lyophilized antivenin was dissolved in ten mL of ultrapure sterile distilled water (UDW), while the venom was dissolved in one mL of normal saline solution (NSS). Protein concentrations of the preparations were determined by using Bradford’s reagent (Bio-Rad, Hercules, CA, USA).
For preparing NkLN-HuScFv, the gene sequence coding for the HuScFv (huscfv) in phagemid transformed E. coli clone no. P8/22/3 [10 (link)] was subcloned into pET23b+, and the recombinant plasmids were put into BL21 (DE3) E. coli. The transformed bacteria were grown under IPTG induction condition, and soluble NkLN-HuScFv was purified from the bacterial lysate by using Ni-NTA affinity resin (Thermoscience, Rockford, IL, USA). The E. coli-derived NkLN-HuScFv has been shown to neutralize N. kaouthia neurotoxin and rescued the N. kaouthia envenomed mice from lethality [10 (link)]. By using the phage peptide mimotope search and multiple alignments, the HuScFv was found to bind to amino acids in loop 3 of N. kaouthia long neurotoxin (accession No. 229777), which is the venom binding site to the neuronal acetylcholine receptor (AchR) [10 (link)].
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7

Nuclear Extraction Protocol for Mammalian Cells

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Cells were washed with PBS, dislodged and pelleted by centrifugation and resuspended in the cell lysis buffer: 10 mM HEPES; pH 7.5, 10 mM KCl, 0.1 mM EDTA, 1 mM dithiothreitol (DTT), 0.5% Nonidet-P40 with the protease inhibitor cocktail (Sigma) and allowed to swell on ice for 15-20 min with intermittent mixing. Tubes were vortexed to disrupt cell membranes and then centrifuged at 12,000 g at 4 °C for 10 min. The pelleted nuclei were washed three with the cell lysis buffer and resuspended in the nuclear extraction buffer containing 20 mM HEPES (pH 7.5), 300 mM NaCl, 1 mM EDTA, 1 mM DTT and protease inhibitor cocktail, incubated in ice for 30 min. Nuclear extract is collected by centrifugation at 12,000 g for 15 min at 4 °C. Protein concentration of the nuclear extract is estimated using Bradford’s reagent (BioRad, USA).
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8

Apoptosis Pathway Profiling in Breast Cancer Cells

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MDA-MB-231, MCF7 cells were incubated with different concentrations of ST08 (0,20,40,75,80,100 nM) for 48h, and western blotting was performed as described (2 (link), 5 (link), 34 (link)). The tumor tissues(100mg) from two groups (Control and ST08 treated) were minced using liquid nitrogen. The powdered tissue was sonicated in RIPA buffer, and the supernatant was collected after centrifugation at 12000 rpm, 4°C, 15 min. The supernatant containing protein was quantified using Bradford’s reagent(Biorad), and then immunoblotting was performed (2 (link), 12 (link)). The membrane was probed with appropriate primary antibodies involved in apoptosis, such as Apaf1, Cytochrome c,p53 were purchased from Santa Cruz Biotechnology; Bax, PARP, Caspase 3, and Caspase 9 from Cell Signaling Technology; PTX3, MMP1, MMP2, Bcl2 from Cloud clone Corp and NF-κB from Biolegend. The membrane was probed with HRP-conjugated secondary anti-rabbit, anti-mouse antibody (Cell Signaling Technology). The blots were developed with chemiluminescence reagent (Clarity Western ECL blotting substrate, Biorad), and the blot images were captured by the Chemidoc-XRS Biorad gel doc system. The protein band images were quantified using GelQuant.Net, BiochemLab solutions.
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9

Protein Concentration Determination

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The protein concentration was determined [49 (link)] by mixing 1 mL of Bradford’s reagent (BioRad) with 50 µL of the sample and read in a multimode microtiter plate reader (SpectraMax@i3x) at 595 nm using bovine serum albumin as the standard. The specific activity of CMCase was calculated and expressed in terms of IU per mg of protein.
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10

Cellular Fractionation for RPE Cells

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RPE cells were left untreated or treated with 1 μM A-1155463, 1 μM 4NQO, or both compounds for 2 h. The cells were washed with PBS and collected in cell lysis buffer consisting of 10 mM HEPES, pH 7.5, 10 mM KCl, 0.1 mM EDTA, 1 mM dithiothreitol, 0.5% Nonidet-40, and a protease inhibitor cocktail. The cells were placed on ice for 20 min and vortexed every 5 min, and then centrifuged at 12,000× g at 4 °C for 10 min. The supernatant was collected as a cytoplasmic fraction. The remaining cell pellets were washed three times with cell lysis buffer and resuspended in nuclear buffer consisting of 20 mM HEPES, pH 7.5, 400 mM NaCl, 1 mM EDTA, 1 mM dithiothreitol, and a protease inhibitor cocktail. The resuspended nuclear fraction was placed in ice for 30 min and centrifuged at 12,000× g at 4 °C for 15 min. The supernatant was collected as nuclear extracts. Protein concentrations for all cell fractions was determined using Bradford’s reagent (BioRad, Irvine, LA, USA).
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