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130 protocols using goat anti rabbit secondary antibody

1

Quantification of Gadd45β protein expression

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The expression levels of Gadd45β protein in cells and tissues were assessed by western blot assay. In detail, the cell and tissue samples were firstly collected, and then lysed. The protein concentration of the whole lysates was quantified by the BCA Protein Assay Kit (Pierce, Rockford, IL, USA). The following antibodies were used in the experiment: rabbit anti-human polyclonal antibody to Gadd45β (dilution 1:2000; Abcam, Cambridge, UK), rabbit anti-GAPDH antibody (dilution 1:1000; Abcam); the secondary goat anti-rabbit antibody (dilution 1:5000; Abcam). In addition, to examine the stem character of cells, the used antibodies were specific for SOX9, OCT4, GAPDH (Abcam), and goat anti-rabbit secondary antibody (Abcam).
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2

Immunohistochemical Analysis of Tumor Vasculature

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Tumour tissues were obtained from euthanized mice after the indicated treatments and fixed with paraformaldehyde (Sigma-Aldrich, St Louis, MO, USA) diluted to 10% in PBS for 24 h. For immunohistochemical staining, the sections were cut serially (5 μm) and boiled at 121 °C for 20 min in 10 mM citrate buffer solution (pH 6.0) for antigen retrieval. After endogenous peroxidase activity was blocked with 0.3% hydrogen peroxide, the sections were incubated with a primary rabbit polyclonal antibody against CD31 (1:800, Abcam, Cambridge, MA, USA) overnight at 4 °C. After adding a goat anti-rabbit secondary antibody (1:1200, Abcam, Cambridge, MA, USA) for 30 min incubation at room temperature, the sections were incubated with a DAB detection kit (Jiancheng Bioengineering Institute, Nanjing, China). Following dehydration and clearing, the sections were analysed by general microscopy (Leica, Wetzlar, Germany).
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3

Quantification of Protein Expression

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Total protein was extracted using a RIPA lysis buffer (Fdbio science, Hangzhou, China). The proteins were then separated by SDS-PAGE and transferred onto polyvinylidene fluoride membrane. The membrane was blocked with 5% nonfat dried milk and incubated with MSH2 primary antibody (1:5000, Abcam, Cambridge, UK) and goat anti-rabbit secondary antibody (1:10000, Abcam, Cambridge, UK). Proteins were detected by using enhanced chemiluminescence method and imaged by GelDoc™ XR+ system (Bio-Rad, Hercules, USA). GAPDH (1:5000, Abcam, Cambridge, UK) was chosen as an internal control and the expression level of MSH2 protein was normalized by GAPDH.
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4

Protein Expression Analysis by Western Blot

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After cell lysis, total protein was collected and run on 12% Bis-Tris gradient gels (Thermo Fisher Scientific) and electropho retically transferred onto polyacrylamide membranes (Thermo Fisher Scientific). Nonspecific binding sites were blocked by incubating the membranes for 1 hour at 37°C with 5% nonfat dried milk in Tris-buffered saline containing 0.05% Tween-20 (TBST). Membranes were incubated overnight at 4°C with the following primary antibodies: anti-S100A4 (1:1,000; Santa Cruz Biotechnology Inc., CA, USA), anti-p53 (1:1,000; Santa Cruz Biotechnology Inc.), anti-E-cadherin (1:400; Santa Cruz Biotechnology Inc.), and anti-β-actin (1:1,000; Abcam, Cambridge, UK). Then, membranes were additionally washed and incubated with a goat anti-rabbit secondary antibody (1:20,000; Abcam). Bands were visualized using an enhanced chemiluminescence system (ECL, Pierce, Rockford, IL, USA).
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5

Western Blot Analysis of Signaling Proteins

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HepG2 cells in each group were lysed in RIPA buffer. The lysates were centrifuged at 12,000 × g for 30 min at 4°C. The protein concentration was then determined using the BCA Protein Assay Kit (Beyotime Biotechnology, Shanghai, P.R. China) according to the manufacturer’s instructions. The protein (50 μg) was separated in 12% SDS-PAGE gel and then transferred onto a polyvinylidene fluoride (PVDF) membrane (Thermo Fisher). The PVDF membrane was blocked in 5% nonfat milk (Yili, Beijing, P.R. China) at room temperature for 3 h, and then incubated with rabbit anti-human phospho (p)-Smad2, total (t)-Smad2, p-ERK1/2, t-ERK1/2, E-cadherin, N-cadherin, vimentin, Slug, MMP9, and GAPDH, followed by goat anti-rabbit secondary antibody (all from Abcam, Cambridge, MA, USA). The immunoblots on the membrane were visualized using Enhanced Chemiluminescence Kit (Thermo Fisher) and recorded by G:Box Chemi XL system (Syngene, Cambridge, UK).
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6

Immunocytochemistry of TLR3 and TLR4

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MSC (5,000) were cultured in 250 μL of EM in 8-well Permanox chamber slides (Thermo Fisher Scientific) until 60–80% confluency. Cells were exposed to 1 μg/mL of polyinosinic:polycytidylic acid (poly I:C; Sigma-Aldrich) and 10 ng/mL of lipopolysaccharide (LPS; Sigma-Aldrich) for one hour to induce TLR3 and TLR4 expression. For ICC, cells were washed thrice with PBS, fixed in situ for 5 minutes with 4% paraformaldehyde (PFA; Invitrogen), washed thrice again with PBS and permeabilized with 0.1% Triton for 15 minutes. Cells were then washed again and treated with 3% hydrogen peroxide for 15 minutes. Non-specific antibody binding was blocked by incubation with 5% FBS for 10 minutes followed by one hour incubation with polyclonal primary antibody to TLR3 or TLR4 (both Imgenex, San Diego, CA). Cells were then washed thrice with PBS and incubated for one hour with goat anti-rabbit secondary antibody (Abcam). Bound antibody linked to horseradish peroxidase (HRP) was detected using 3,3'-diaminobenzidine chromogen (Dako, Burlington, ON). Cells were counterstained with Harris hematoxylin to visualize nuclei, and images were acquired on a phase contrast microscope.
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Western Blot Analysis of SIRT1 Protein

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Cells were lysed with ice-cold lysis buffer (Beyotime Institute of Biotechnology, Shanghai, China), and protein was separated with 12% sodium dodecyl sulphate-polyacrylamide gel electrophoresis (SDS-PAGE) (Beyotime Institute of Biotechnology), which was then transferred onto polyvinylidene difluoride membrane (Thermo Fisher Scientific). The membrane was then incubated with PBS containing 5% non-fat milk (Yili, Beijing, China) overnight at 4°C. After washed with PBST for 3 times, the membrane was incubated with rabbit polyclonal anti-SIRT1 antibody (1:200; Abcam, Cambridge, MA, USA) or rabbit polyclonal anti-GAPDH antibody (1:200; Abcam) at room temperature for 3 h. After washed with PBST for 3 times, the membrane was incubated with goat anti-rabbit secondary antibody (1:10,000; Abcam) at room temperature for 1 h. The immunoreactive band was detected using the enhanced chemiluminescence system (Thermo Fisher Scientific), according to the manufacture's instruction. The protein expression was measured using Image Pro Plus software (Media Cybernetics, Rockville, MD, USA).
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8

Western Blot Analysis of Protein Expression

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The cells were lysed using radioimmunoprecipitation assay lysis buffer (Beyotime Institute of Biotechnology). Protein concentration was quanitified using a bicinchonininc acid assay kit. Total protein (50 µg/lane) was separated by 10% SDS-PAGE, followed by transfer onto polyvinylidene difluoride membranes (Millipore, Billerica, MA, USA). The membrane was subsequently incubated with rabbit anti-human TNFAIP8 antibody (cat. no. ab64988; 1:100), rabbit anti-human MMP2 (cat. no. ab3715; 1:100), rabbit anti-human MMP9 antibody (cat. no. ab38898; 1:100), rabbit anti-human GAPDH antibody (cat. no ab9485; 1:100; all Abcam, Cambridge, UK) at room temperature for 3 h, and then with a goat anti-rabbit secondary antibody (cat. no. ab7090; 1:10,000; Abcam) at room temperature for 1 h, and then visualized using an enhanced chemilluminescence kit (Pierce; Thermo Fisher Scientific, Inc.).
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9

Immunohistochemical Analysis of USP21 Expression

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Tumor tissues were fixed in formalin, embedded in paraffin, and sectioned into 5 µm slices for hematoxylin and eosin staining and immunohistochemistry (IHC). Tissue sections were rehydrated, and antigen retrieval was performed. Then, tissue sections were incubated with anti-USP21 antibody (1:100; Abcam, Cambridge, MA, USA) for 12 h at 4 °C. After multiple washes, the sections were incubated with goat anti-rabbit secondary antibody (1:500; Abcam) for 1 h at room temperature and then visualized using a 3,3′-diaminobenzidine solution (Sigma, St. Louis, MO, USA).
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10

Protein Expression Quantification Protocol

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Cultured cells of each group were harvested, and the total protein was extracted using the RIPA lysis method. The protein concentration was detected by the bicinchoninic acid (BCA) method, and adjusted to 4μg/μL. Then, the total protein was isolated through 12% SDS-PAGE, and transferred to a polyvinylidene fluoride (PVDF) membrane. The membrane was dyed with Ponceau’s stain liquid, washed with phosphate buffer saline with Tween (PBST) for 5 min, immersed in 5% skim milk for 2 h, and then added with YAP1, caspase 3, Bcl-2, Bax, and β-catenin (1:1000 each) primary antibody (Abcam, USA), and sealed at 4°C all night long. The membrane was cleaned to remove the primary antibody, and then it was added with goat anti-rabbit secondary antibody (1:5000, Abcam, USA), cultured at 37°C for 1 h, washed with PBS 3 times, 5 min/time, and developed in the dark. The liquid on the membrane was removed by a filter paper, and the membrane was made to be luminescent through electrochemiluminescence (ECL) for development. The protein band was scanned, and the gray value was evaluated through Quantity One software to calculate the protein expression. The relative expression of protein = the gray value of target protein band/the gray value of β-Actin protein band.
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