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25 protocols using transfer unit

1

Protein-DNA Binding Assay for GLTSCR1

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PCDNA3.1 + Flag-tagged GLTSCR1 vector and empty vector were overexpressed in 293 T, and proteins were enriched by M2 magnetic beads (Sigma, CAT#M8823). Purified proteins and biotin-labeled DNA (Motif probe F: TTTAAAATAAAAATT; Motif probe R: AATTTTTATTTTAAA; Mutated probe F: CCCGGGGCGGGGGCC; Mutated probe R: GGCCCCCGCCCCGGG) were incubated in Binding buffer by rotating at 37 °C for 4 h. Samples were diluted with loading buffer and loaded onto BeyoGel™ EMSA PAGE (Beyotime, CAT#GS302S). Electrophoresis was performed at 100 V for 1 h, followed by transfer to nylon membrane (Beyotime, CAT#FFN13) at 60 V for 1 h with a Bio-Rad transfer unit (Bio-Rad). After transfer, DNA was immobilized with UV cross-linker. The membrane was blocked with blocking buffer for 15 min at room temperature and then incubated with Streptavidin-HRP (LI 925-32230, LI-COR® BIOSCIENCES, USA) for 15 min. Membrane was washed three times with washing buffer and imaged by the Odyssey Infrared Imaging System (LI-COR Biosciences, Lincoln, NE, USA).
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2

Western Blot Analysis of Protein Samples

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Protein samples were resolved by SDS-PAGE, followed by protein transfer to polyvinylidene-difluoride membranes for 1 h using a Bio-Rad transfer unit (Bio-Rad). The membranes were then blocked for 30 minutes in Tris-buffered saline containing 0.01% Tween 20 (TBST) and 5% nonfat dried milk, followed by incubation for 2 h with primary antibody in TBST containing 2% bovine serum albumin, and then 1 h of incubation with horseradish peroxidase-conjugated anti-mouse or rabbit antibody. The blots were developed with WEST-ZOL® plus western blot detection system (Intron Biotechnology, Daejeon, Republic of Korea). Quantitation of band intensities on the XAR-5 film (Eastman Kodak, NY, USA) (21 (link), 38 (link)) was performed using Quantity One software (Bio-Rad).
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3

Protein Extraction and Western Blot Analysis

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The cell proteins were extracted using an extraction kit (Beyotime, Haimen, Jiangsu, China) according to the recommended protocol. The protein concentrations were determined using the Bradford method with a Bio-Rad protein Assay kit (Bio-Rad, Hercules, CA, USA). The protein samples (50 μg) were heated to 100°C for 5 min in 2× loading buffer and separated by 8% to 12% SDS-PAGE, followed by transfer to Nitrocellulose membranes (Bio-Rad) with a Bio-Rad transfer unit (Bio-Rad). The membranes were blocked with TBST buffer (Tris buffered saline plus 0.05% Tween-20) containing 5% w/v nonfat milk, incubated overnight with primary antibody at 4°C, and then incubated with a specific secondary antibody conjugated with either LI-COR IR-680 or LI-COR IR-780 antibody for 2 h at room temperature (RT). Protein bands were visualized by the Odyssey Infrared Imaging System (LI-COR Biosciences, Lincoln, NE, USA).
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4

Quantifying Protein Expression in HEK293 Cells

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HEK293 lysates were obtained using RIPA lysis buffer (Sigma Aldrich) with phosphatase and protease inhibitor cocktails (Roche). The protein concentrations in the samples were determined using the Pierce BCA protein assay kit (Thermo Fisher Scientific). A total of 20 µg of protein samples diluted in sample buffer containing 2-mercaptoethanol (Sigma-Aldrich), denatured for 10 min at 95 °C, were loaded in each well and separated by sodium dodecyl sulfate–polyacrylamide gel electrophoresis (SDS-PAGE) in a 10 or15% polyacrylamide gel cast using the TGX FastCast acrylamide kit (Bio-Rad). After electrophoretic separations, proteins were transferred to polyvinylidene fluoride (PVDF) membrane using a transfer unit (Bio-Rad) at 80 V for 1 h. After transfer, the PVDF membranes were blocked with 5% bovine serum albumin (BSA) for 2 h and incubated overnight at 4 °C with primary antibodies. These include: anti-pSer209eIF4E (Cell Signaling Technology #9741), anti- eIF4E (Cell Signaling Technology, #9742, anti-4E-BP1(Cell Signaling Technology #9452) and anti-β-actin (Cell Signaling Technology #8H10D10). Detection of the immunoreaction was performed with a Clarity western enhanced chemiluminescence substrate kit (Bio-Rad) using ChemiDoc MP imaging system (Bio-Rad).
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5

Western Blot Analysis of Cell Signaling Proteins

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Brain tissue or cultured cells in lysis buffer containing a mixture of protease inhibitors were disrupted in a glass homogenizer; the resulting homogenate centrifuged at 12,000 rpm at 4° C for 20 min; and the protein concentrations of the supernatants thus obtained determined with the BCA protein assay kit [47] . The proteins were subsequently separated by 10% SDS-PAGE and then blotted onto polyvinylidene difluoride (PVDF) membranes with a transfer unit (Bio-Rad Inc., USA).
For relative quantification of the proteins, these membranes were thereafter incubated with antibody against phosphor-GSK3β (ser9), GSK3β, β-catenin, cyclin D1, α7 nAChR, or GAPDH at 4° C overnight. After washing, the membranes were incubated with horseradish peroxidase-conjugated secondary antibody for 60 min.
Finally, the protein bands were detected utilizing an enhanced chemiluminescence system (ECL kit, MiniporeInc., USA) and the signals thus obtained visualized by exposure to hyper-performance chemiluminescence film for 30 s to 3 min. Signal intensity was quantified employing the Image J software.
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6

Hippocampal Protein Expression Analysis

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Samples of the left hippocampus or cortex were homogenized in PBS containing complete protease inhibitors in a glass vesicle; the resulting homogenate was centrifuged at 12,000 rpm at 4°C for 20 min; and the protein concentrations of the supernatant thus obtained determined with the BCA protein assay kit. Proteins (30 μg) were subsequently separated by 8-10% SDS-PAGE and then blotted onto polyvinylidene difluoride (PVDF) membranes with a transfer unit (Bio-Rad Inc.). For the relative quantification of the proteins, these membranes were thereafter incubated with antibodies against α7 (1:1000), α4 (1:1500) and β2 (1:1000), cleaved caspase-3 (1:1000, Gene Tex, USA), Bcl-2 (1:1000, CST, USA), Bax (1:1000, CST, USA), Snap-25 (1:1000, Gene Tex, USA), Syn (1:1000, Gene Tex, USA) or β-actin antibody (1:5000, Gene Tex, USA) at 4°C overnight. After washing, the membranes were incubated with horseradish peroxidase-conjugated secondary antibody (1:5000, Gene Tex, USA) for 60 min. Finally, these membranes were incubated in ECL Plus (Pierce, Thermo Fisher Scientific) reagent and the signals thus obtained visualized by exposure to hyper-performance chemiluminescence film for 30 sec to 5 min.
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7

Western Blot Analysis of Catalase and Glutathione Peroxidase

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Twelve serum samples from PB or BMA were collected for Western blotting. The protein content was quantitated using a protein assay kit (Pierce Biotechnology, Rockford, IL, USA), separated by 6% SDS-PAGE for catalase and 10% for glutathione peroxidase and β-actin, and transferred onto membranes using a transfer unit (Bio-Rad, Hercules, CA, USA). After blocking, the membranes were incubated with 1,000-fold diluted rabbit antibodies against catalase and glutathione peroxidase (Abcam, Cambridge, UK) or mouse antibodies against β-actin (Millipore, Temecula, CA, USA). After washing, the membranes were further incubated for 2 h with 10,000-fold goat anti-mouse IgG (Calbiochem, Millipore, Billerica, MA, USA) or goat anti-rabbit IgG (Millipore) conjugated to horseradish peroxidase. The membranes were then washed and rinsed with ECL detection reagents (Amersham Pharmacia Biotech, Amersham, Buckinghamshire, UK). The band images were photographed using ECL Hyperfilm (Amersham).
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8

Quantification of Alzheimer's Biomarkers

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The levels of enzymes that cleave APP (BACE1, a β-secretase; ADAM10, a constitutive α-secretase; and BACE2, another β-secretase) and of synaptic proteins (SNAP25 and SYP) were determined by Western blotting. For this purpose, the brain tissues were homogenized in PBS containing complete protease inhibitors in a glass vesicle; the resulting homogenate was centrifuged at 12,000 rpm at 4 °C for 20 min; and the protein concentrations of the supernatant thus obtained determined with the BCA protein assay kit, and the protein sample of each group was 30 μg.
The proteins were subsequently separated by 10% SDS-PAGE and then blotted onto polyvinylidene difluoride (PVDF) membranes with a transfer unit (Bio-Rad Inc.). For the relative quantification of the proteins, these membranes were thereafter incubated with antibody against BACE1 (1:1000 dilution), ADAM10 (1:1500 dilution), BACE2 (1:500, dilution), SNAP-25 (1:1000 dilution), SYP (1:500 dilution), or β-actin antibody (1:5000, dilution), at 4 °C overnight. After washing, the membranes were incubated with horseradish peroxidase-conjugated secondary antibody (1:5000) for 60 min. Finally, these membranes were incubated in ECL Plus reagent, and the signals thus obtained visualized by exposure to hyper-performance chemiluminescence film for 30 s to 5 min.
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9

Western Blot Analysis of Protein Expression

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Cells or tissue samples were lysed in protein lysis buffer (50 mM Tris-HCl, 150 mM NaCl, 0.5% deoxycholate, 1% NP-40, and 0.1% SDS with protease inhibitor cocktail; Roche). Total protein extracts (25–30 µg) were boiled for 5 min at 95°C, separated by SDS-PAGE, and transferred to polyvinylidene fluoride membranes (Merck) using a Bio-Rad transfer unit. Membranes were blocked with 5% skim milk diluted in Tris-buffered saline containing 0.1% Tween-20 and incubated with antibodies against TIF1γ (1:1,000, ab84455, human TRIM33 aa 1,077–1,127 [C terminal]; Abcam), αSMA (1:3,000, C6198, N-terminal synthetic decapeptide of αSMA; Sigma-Aldrich), EPLIN (1:500, ab50196, synthetic peptide: GVLAASMEAK ASSQQEKEDK PAETKKLRIA WPPPTELGSS GSALEEGIKM, corresponding to amino acids 502–551 of human EPLIN; Abcam), and anti-Nm23-H1 (1:1,000, sc-465, purified nm23-H1 of human origin; Santa Cruz Biotechnology); anti-α-tubulin antibody (1:5,000, T6199, the C-terminal end of the α-tubulin isoform [aa 426–430]; Sigma-Aldrich) or anti-GAPDH antibody (1:3,000, ab9485, full-length native protein [purified] corresponding to human GAPDH; Abcam) were used to detect internal control proteins. Membranes were washed and incubated with HRP-conjugated secondary antibodies (Jackson ImmunoResearch Laboratories) and washed, and immunoreactive bands were detected using Luminata Classicco (Merck).
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10

Quantifying AChM1 Receptor Protein in Hippocampus

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Protein extract was applied to western blot analysis. For this purpose, the hippocampus was homogenized in lysis buffer containing complete protease inhibitor cocktail (1 M Tris-HCl (pH 8.0), 5 M NaCl, 10% Nonidet P-40, and 1 M 1,4-dithio-DL-threitol (DTT)) [27 (link)]. Lysate samples containing 30 μg of protein were fractionated by SDS-10% polyacrylamide gel electrophoresis and then blotted onto polyvinylidene fluoride membranes (Millipore, USA) with a transfer unit (Bio-Rad, USA). For the quantification of AChM1 receptor protein, these polyvinylidene fluoride membranes were thereafter incubated with primary antibodies as rabbit anti-rat-M1 polyclonal antibody at a 1 : 2000 dilution (Abcam, UK) and then incubated with a horseradish peroxidase-conjugated secondary antibody at a 1 : 5000 dilution. The membranes were put into chemiluminescence (ECL) reagent and exposed to film. Band densities were determined with image densitometer software. GAPDH was used as a housekeeping protein to normalize the protein load.
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