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13 protocols using ab33889

1

Western Blot Analysis of Autophagy Markers

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The collected T24 cells were lysed using radio-immunoprecipitation assay solution (SY4680, YITA Biotechnology, Beijing, China), and protein concentration was examined by bicinchoninic acid kits (P0012, Beyotime). Following separating with 10% sodium dodecyl sulfate-polyacrylamide gel electrophoresis, proteins were electrotransferred to polyvinylidene fluoride membranes. Following blockade with 5% skim milk for 2 h, membranes were probed overnight at 4 °C with following rabbit anti-human primary antibodies: matrix metalloproteinase MMP-2 (1/10,000, ab92536, Abcam, Cambridge, UK), light chain 3B (LC3B; 1/50, ab192890), p62 (1/1000, ab207305), phosphorylated p53 (p-p53; 1/1000. ab33889), p53 (1/2000, ab179477), p-mTOR (1/2000, ab109268), mTOR (1/10,000, ab134903), and β-actin (1/1000, ab8227), followed by 1-h incubation with the horseradish peroxidase-labeled goat anti-rabbit secondary antibody IgG (1/50,000, ab205718) at room temperature. Afterward, the images were developed with enhanced chemiluminescence working solution (E412-01, Vazyme). The bands were quantified utilizing Image-Pro Plus 6.0 (Media Cybernetics), with β-actin as an internal reference.
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2

Ovarian Tissue Immunohistochemistry and Immunofluorescence

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To evaluate protein localization and intensity, immunohistochemistry and immunofluorescence were performed according to previously described methods [26 (link), 27 (link)]. Ovarian tissue slides were dewaxed in xylene and graded series of ethanol solutions. Slides were then fixed in 4% paraformaldehyde and blocked with 3% bovine serum albumin (BSA) at 37°C. The sections were incubated overnight at 4°C with antibodies against p-IRE1α (1: 200, ab124945, Abcam, Cambridge, UK), XBP1 (1: 100, WL00708, Wanleibio, Shenyang, China), p-PI3K (1 : 200, AF3242, Affinity, USA), p-AKT (1: 200, 4060T, CST, USA), p-p53 (1: 200, ab33889, Abcam, UK), p-NF-κB (1: 200, 3033S, CST, USA), and cleaved-caspase-3 (1: 200, 66470-2-Ig, Proteintech, USA). All secondary antibodies were diluted (1 : 2000) and incubated at 25°C for 2 h. The sections were processed according to the avidin-biotinylated-peroxidase complex and DAB staining techniques, followed by observation under an optical microscope. Nuclei were counterstained with 4,6-diamidino-2-phenylindole (DAPI) (1 : 2000, C1002, Beyotime, China) for 30 min and photographed using an Olympus laser scanning confocal microscope (FV3000).
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3

Western Blot Analysis of Protein Expression

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Cells were first lysed (Solarbio, Beijing, China) and then denatured in SDS buffer to obtain total protein. The protein was separated on a 10% SDS-polyacrylamide gel (30 mg per lane) and transferred to a PVDF membrane (Merck Millipore, MA, USA). After blocking in 5% skim milk for 1 h, the membrane was incubated with primary antibody overnight at 4 °C and then incubated with the secondary antibody (1:15,000, GE Healthcare, Cambridge, UK) for 1 h at room temperature. Then, visualization was performed with ECL chemiluminescence reagent (Merck Millipore, MA, USA).
The antibodies used in this study were as follows: CRABP2 (1:1,000, ProteinTech, Cat. # 10225-1-AP), BAX (1:1,000, Abcam, ab32503), BCL-2 (1:1,000, Abcam, ab32124), cleaved caspase-3 (1:1,000, Abcam, ab32042), PARKIN (1:1,000, ProteinTech, Cat. # 14060-1-AP), ATR (1:1,000, Abcam, ab2905), p-ATR (1:1,000, Abcam, ab178407), ATM (1:1,000, Abcam, ab32420), p-ATM (1:1,000, Abcam, ab81292), P53 (1:1,000, Abcam, ab32389), p-P53 (1:1,000, Abcam, ab33889), TET1 (1:1,000, Abcam, ab272900), DNMT3A (1:1,000, Abcam, ab188470), DNMT3B (1:1,000, Abcam, ab2851), P62 (1:1,000, ProteinTech, Cat. # 18420-1-AP), TOMM40 (1:1,000, Abcam, ab185543), α-tubulin (1:5,000, Abcam, ab7291), β-actin (1:5,000, ProteinTech, Cat. # 66009-1-Ig), GAPDH (1:20,000, ProteinTech, Cat. # 60004-1-Ig).
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4

Antibody Panel for Protein Analysis

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The following antibodies were used: anti-AKT (ab179463, Abcam, Cambridgeshire, UK), anti-AKT (phospho Ser473, 4060, CST, Boston, United States), anti-P53 (2,524, CST, Boston, United States), anti-P53 (phospho S392, ab33889, Abcam, Cambridgeshire, UK), anti-Ferritin (ab75973, Abcam, Cambridgeshire, UK), anti-GPX4 (ab125066, Abcam, Cambridgeshire, UK), anti-XCT (ab175186, Abcam, Cambridgeshire), anti-α-tubulin (ab7291,Abcam, Cambridgeshire, UK). HRP-conjugated secondary antibodies (ZB-2301 or ZB-2305, ZSGB-BIO, Beijing, China) and fluorochrome conjugated secondary antibody (ab150064, Abcam, Cambridgeshire).
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5

Immunostaining of Vascular Smooth Muscle Cells

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VSMCs were cultured on cover slides in 24‐well plates. After washing with PBS three times, they were fixed in 4% PFA for 15 minutes followed by permeabilization with 0.1% Triton X‐100 in PBS for half an hour. Cells were blocked by 10% BSA and then incubated with the following primary antibodies at 4°C overnight: anti‐calponin (1:100, Abcam, ab46794), anti‐α‐SMA (1:100, Abcam, ab5694), anti‐MYH11 (1:100, Abcam, ab82541), anti‐Smoothelin (1:100, Abcam, ab8969), p‐p53 (1:100, Abcam, ab33889) and anti‐ki‐67 (1:100, Abcam, ab15580). Next, cells were incubated in the dark with fluorescent‐labelled secondary antibodies (1:1000) for 1 hour at room temperature. Subsequently, VSMCs were washed with PBS three times and mounted with 4′, 6‐diamidino‐2‐phenylindole (DAPI). Finally, five randomly selected areas of each slide were photographed under a fluorescence microscope.
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6

Western Blot Analysis of Cell Signaling

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Cell lysate was collected using RIPA lysis buffer. The cell protein mass of each lysate was determined by BCA Protein Assay Reagent (Pierce, IL). Proteins were separated using 10% SDS-polyacrylamide gel electrophoresis (SDS-PAGE), transferred to membranes (0.22 μm, Sigma) and incubated with primary antibodies at 4°C overnight. The primary antibodies are as follows: antibodies against VEGFA (1/1000; ab1316, Abcam), TGFβ1 (1/1000; ab215715, Abcam), Angiopoietin-1 (1/20000; ab183701, Abcam), ZO-1 (1/1000; ab216880, Abcam), Occludin (1/1000; ab216327, Abcam), Claudin-5 (1/1000; ab131259, Abcam), G3BP2 (1/2000; ab86135, Abcam), p-p38 (1/1000; ab195049, Abcam), p38 (1/2000; ab170099, Abcam), p-p53 (1/2000; ab33889, Abcam), p53 (1/1000; ab26, Abcam), and GAPDH (1/500; ab8245, Abcam). Next, the membranes were incubated with HRP-conjugated secondary antibody IgG (1/2000; ab7090, Abcam) at room temperature for 2 h. GAPDH antibody served as a negative control. At last, the protein bands were visualized by an ECL Western Blotting Substrate Kit (ab65623, Abcam) and quantified by the ImageJ software.
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7

Protein Expression Analysis in GBM

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RIPA buffer (PC104, Epizyme, China) was applied to extract protein from GBM tissues followed by centrifugation. The lysed protein was quantified utilizing BCA kit (ZJ101, Epizyme, China). After electrophoresis (10% SDS-PAGE), the protein was blotted onto nitrocellulose membranes. After being sealed, the membranes were immersed in primary antibodies at 4°C overnight. A further 60 min reaction was done after the addition of secondary antibodies. After being developed with an ECL luminescence reagent (P1000, Applygen, China), the signals were analyzed by a gel imaging system. The primary antibodies of Cyclin D1 (1 : 200, ab16663), C-myc (1 : 1000, ab32072), Bad (1 : 1000, ab32445), p-p53 (1 : 5000, ab33889), ATM (1 : 1000, ab201022), Histone H2A.X (1 : 1000, ab20669), p-Histone H2A.X (1 : 1000, ab81299), phospho-STAT3 (Ser727) (1 : 1000, ab32143), phospho-STAT3 (Tyr705) (1 : 10000, ab267373), STAT3 (1 : 2000, ab68153), and GAPDH (1 : 10000, ab181602) were gained from Abcam (UK). The primary antibodies of p-AKT (1 : 2000, #4060), AKT (1 : 1000, #4685), Cleaved Caspase-9 (1 : 1000, #9507), and p-ATM (1 : 1000, #2851) were obtained from CST (USA). PD-L1 (1 : 1000, abx179111) was bought from Abbexa (USA). Pro-Caspase-9 (1 : 2000, AF6348) was bought from Affinity (USA).
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8

Molecular Profiling of VSMC Responses

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Total protein of treated VSMCs was extracted using RIPA (CST, 9806) with Protease/Phosphatase inhibitor (CST, 5872) and the concentration measured using a bicinchoninic acid (BCA) assay kit (Thermo, 231227). A total of 30 µg protein was resolved by 10% Tris‐glycine gel electrophoresis and then transferred onto a PVDF membrane. After blocking with 5% fat‐free milk in TBST, the PVDF membranes were incubated overnight at 4°C with the following antibodies: anti‐p53 (Abcam, ab26), anti‐p‐p53 (Abcam, ab33889), anti‐p21 (Abcam, ab109199), anti‐Sirt1 (Abcam, ab110304) and anti‐GAPDH (CST, 2118). Membranes were then washed three times with TBST and incubated with secondary antibodies (1:3000, CST) at room temperature for 1 hour and then exposed in a dark room. The quantification of Western blotting in three independent experiments was analysed using Image J software (National Institutes of Health).
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9

Protein Expression Analysis by Western Blotting

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Total proteins were extracted using RIPA (Thermo Fisher Scientific), and the protein concentration was estimated through the BCA kit (Beyotime). Proteins were separated using the 10% SDS-page gel and further transferred into a polyvinylidene fluoride (PVDF) membrane (Millipore). The membranes were blocked and subsequently incubated overnight with antibodies against SLC7A11 (Abcam, 1:1000, ab216876), GPX4 (Abcam, 1:1000, ab125066), FOSL2 (Cell Signaling Technology, 1:1000, #19967), NAMPT (Cell Signaling Technology, 1:1000, #86634), p53 (Abcam, 2 μg/ml, ab26), p-p53 (Abcam, 1:1000, ab33889), and GAPDH (Abcam, 1:2500, ab9485). The membranes were then incubated with the corresponding secondary antibody (Abcam, 1:5000, ab7090) for 60 min following washed with PBST. The bands were visualized using an ECL detection kit (Beyotime).
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10

Immunohistochemical Analysis of p53, p21, and PCNA

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p53, p53 Ser15-P, p53 Ser392-P, p21, and PCNA were examined by immunohistochemistry (IHC) on formalin-fixed, paraffin-embedded sections after xylene deparaffinization and alcohol rehydration. Antigen retrieval was achieved by microwaving in 10 mmol/L sodium citrate buffer at pH 6 for 12 min. Endogenous peroxidase was quenched by incubating the slide with 3% H2O2 for 10 min. After washing, slides were incubated in saturating solution (PBS containing 1% BSA) for 30 min at room temperature (RT), followed by a 1 h incubation at RT with primary antibodies against p53 (ab4060, Abcam), p53 Ser15-P (ab38497, Abcam), p53 Ser392-P (ab33889, Abcam), p21 (#2947, Cell Signaling), and PCNA (ab15497, Abcam). After washing, slides were incubated for 30 min at RT with biotinylated anti-rabbit secondary antibody (E0432, Dako S.p.A) and for 30 min at RT with HPR-streptavidin. The peroxidase reaction was developed with 3, 3′-diaminobenzidine (Dako), and sections were counterstained with hematoxylin. Slides incubated with secondary antibody alone were used as negative controls.
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