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173 protocols using a0216

1

Western Blot Analysis of Cellular Signaling

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Cells were lysed in Laemmli buffer (0.125 M Tris-HCl, pH 6.8, 2% SDS, 5% β-Mercaptoethanol, 10% glycerine, 0.002% bromophenol blue and 1% protease inhibitor cocktail (APExBIO, K1007)). The lysates were separated on 10% or 12% (wt/vol) SDS-polyacrylamide gels. After SDS/PAGE, proteins were transferred to PVDF membrane for Western blotting in transfer buffer with 10% (vol/vol) methanol at 4°C followed by standard Western-blotting protocols. β-actin or α-Tubulin was used for normalizing the protein load. All blots were repeated at least three times. Comparisons of relative levels of specific antigens were done by quantitative densitometry using ImageJ Software (version 1.48). Antibodies: HIF1α (Cell Signaling Technology, 36169), BNIP3 (Cell Signaling Technology, 3769), Ubiquitin (Cell Signaling Technology, 3936), P70S6K (Cell Signaling Technology, 2708), p-P70S6K (Cell Signaling Technology, 9234), PDK1 (Abcam, ab207450), mTOR (Abcam, ab134903), p-mTOR (Abcam, ab109268), AKT1/2/3 (Abcam, ab179463), p-AKT1/2/3 (Abcam, ab192623), LC3II (Zen BioScience, 306019), β-actin (Zen BioScience, 700068), α-Tubulin (Beyotime, AF0001), peroxidase-conjugated anti-rabbit (Beyotime, A0216) and peroxidase-conjugated anti-mouse antibodies (Beyotime, A0216).
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2

Western Blot Analysis of Cellular Proteins

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Proteins were extracted from tissues or cells in RIPA assay and protein concentration was determined by a BCA protein assays kit (Thermo Scientific). Protein were separated into 10% SDS‐PAGE and transferred to polyvinylidene difluoride (PVDF) membranes (Millipore Corp.). The PVDF membranes were incubated by ORMDL3 (ab211522, 1:1000, Abcam), p‐PERK (3179, 1:1000, Cell Signaling Technology, Inc.), PERK (5683, 1:1000, Cell Signaling Technology, Inc.), p‐eiF2α (ab32157, 1:1000, Abcam), eiF2α (ab169528, 1:1000, Abcam), ATF4 (ab184909, 1:1000, Abcam), HSPA5 (ab21685, 1:1000, Abcam), GPX4 (ab125066, 1:1000, Abcam) and β‐actin (ab8226, 1:10000, Abcam) at 4°C overnight. PVDF membranes were incubated with horseradish peroxidase‐conjugated secondary antibodies (A0208, A0216, Beyotime, 1:5000) for 2 h. The signal was tested with the chemiluminescence system (Amersham Pharmacia).
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3

Western Blot Analysis of CSP Protein

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The transfected cells were lysed using a Mammalian Protein Extraction Reagent with Halt Protease Inhibitor Cocktail (Thermo Fisher Scientific, United States) and then subjected to a 12,000 rpm centrifugation at 4°C for 10 min to collect the supernatant. Total protein concentration was determined using the BCA protein assay kit (Thermo Fisher Scientific, United States). Forty micrograms of proteins were loaded onto 12.5% sodium lauryl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) gels. After separation, proteins were transferred to 0.22 μm polyvinylidene fluoride (PVDF) membranes (Millipore, United States). The membranes were blocked for 2 h and then incubated with an anti-CSP antibody (Enzo life, United States, ADI-VAP-SV003-E, 1:1,000) and an anti-beta actin antibody (Sigma, United States, A5441, 1:1,000) overnight at 4°C. After washing three times with Tris-buffered saline with Tween-20 (TBST), the membranes were incubated with corresponding secondary peroxidase-conjugated antibodies (Beyotime, China, A0208 or A0216, 1:1,000). Protein bands were visualized with an ECL kit (Thermo Fisher Scientific, United States). The images were captured using an Odyssey Image Station (LI-COR, United States).
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4

MAML3 Protein Detection by Western Blot

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Cells were lysed in RIPA buffer (Beyotime, China) with 1% PMSF (Biosharp, China). The protein was separated by sodium dodecyl sulfate-polyacrylamide gel electrophoresis (Epizyme, China) and transferred onto PVDF membrane (Millipore, USA). Primary antibodies were applied at 4 °C overnight and HRP-conjugated secondary antibodies were applied for an hour at room temperature. The immunocomplexes were detected with ECL Western Blotting Substrate (NCM Biotech, China), visualized with Tanon (5200multi 4600SF, Tanon, USA). GAPDH was used as the internal control. Primary Antibodies included rabbit antiMAML3 (1:500, Biorbyt, UK), mouse antiGAPDH (1:20000, Beyotime, China). Secondary antibodies (A0208 and A0216, Beyotime, China) were diluted in 1:1000.
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5

Western Blot Analysis of PDK1 Protein

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Total cells collected from different experiments were obtained by lysing in RIPA buffer. The protein concentration was determined using the BCA Protein assay kit (Pierce Biotechnology, Rockford, IL, USA). Cell lysates were subjected to SDS-PAGE electrophoresis and proteins were blotted onto PVDF membranes. The membranes were further incubated with primary antibodies PDK1 (1:1500, ab110025, Abcam Inc, Cambridge, MA, USA) and GAPDH (1:2000, AF0006, Beyotime Biotechnology, Shanghai, China) followed by incubation with an HRP‑conjugated secondary antibody (1:3000, A0216, Beyotime Biotechnology, Shanghai, China). Exposure was performed using enhanced chemiluminescence reagents (Millipore, Billerica, MA, USA).
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Western Blot Analyses of Cell Markers

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Western blot analyses were performed as previously described65 (link),66 (link). Primary antibodies were listed as follows: anti-VDAC2 (ab47104, Abcam); anti-PFKP (ab204131, Abcam); anti-β-actin (mAb#5125, Cell Signaling Technology, Danvers, MA); anti-COX IV (#4850, Cell Signaling Technology); anti-OLIG2 (ab109186, Abcam, Cambridge, UK); anti-β-tubulin (ab179513, Abcam); anti-CD133 (Miltenyi Biotec, Bergisch Gladbach, Germany); and anti-SOX2 (#3579, Cell Signaling Technology). Secondary antibodies are horseradish peroxidase (HRP)-labeled goat anti-rabbit IgG (H + L) (A0208, Beyotime, Shanghai, China) and HRP-labeled goat anti-mouse IgG (H + L) (A0216, Beyotime). Immuno-bands were quantified by densitometry using ImageJ software (NIH, Bethesda, MD, USA).
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7

Protein Quantification and Western Blot

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A BCA Protein Assay Kit (23225, Thermo Scientific Pierce, IL, USA) was used for protein quantification. Rabbit monoclonal antibody anti‐EGR1 (1:1000; 4153, Cell Signalling Technology, MA, USA), rabbit polyclonal antibody anti‐Exph1 (1:500; orb340819, Biobyt, CA, USA), mouse monoclonal antibody anti‐IL10 (60269‐1‐Ig, proteintech, IL, USA), rabbit polyclonal antibody anti‐β‐actin (1:2000, NC021, Zhuangzhibio, Shaanxi, China), horseradish peroxidase‐conjugated secondary antibody (A0216, Beyotime Biotechnology, Shanghai, China) and enhanced chemiluminescence detection (32132, Thermo Scientific Pierce, IL, USA) were employed.
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8

Immunoblotting Analysis of Protein Expression

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Whole protein was extracted using radioimmunoprecipitation assay lysis buffer (Beyotime) and quantified using the bicinchoninic acid Protein Assay Kit (Beyotime). Briefly, a 20 μg protein aliquot was loaded into 10% sodium dodecyl sulfate polyacrylamide gel electrophoresis for separation, followed by electroblotting on a polyvinylidene fluoride membrane (Merck Millipore, Burlington, MA, USA), blocking using 5% fat-free milk, and overnight incubation with the following primary antibodies: anti-UBR5 (ab70311; Abcam), anti-AXIN1 (ab55906; Abcam), anti-β-catenin (ab32572; Abcam), anti-Survivin (ab76424; Abcam), anti-C-myc (ab39688; Abcam), anti-lactate dehydrogenase A (LDHA, ab101562; Abcam), anti-pyruvate kinase isozymes M2 (PKM2, ab137852; Abcam), anti-H3 (ab1791; Abcam), and anti-GAPDH antibody (60004-1-1G; ProteinTech, Rosemont, IL, USA). They were washed thrice with Tris-buffered saline with Tween 20 and incubated with horseradish peroxidase-conjugated secondary antibodies (A0208, A0216; Beyotime). Finally, the blot was imaged using the Enhanced Chemiluminescence Detection Kit (Pierce Biotechnology), and the band intensity was measured using Image-Pro Plus 6.0 software, with GAPDH as the loading control.
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9

Quantification of Apoptosis-Related Proteins

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Cells and tissues were lysed with RIPA lysis buffer (Beyotime, Shanghai, China) containing protease inhibitors. Total protein was extracted and protein concentration was quantified using a BCA assay kit (Boster Biotech, Wuhan, China). The proteins were separated by sodium dodecyl sulfate-polyacrylamide gel electrophoresis and transferred to a polyvinylidene difluoride membrane. The membrane was blocked with 5% skim milk powder for 3 hours at room temperature, and incubated with the following primary antibodies: METTL3 (ab195352, 1:1,000, Abcam, Cambridge, England), Bcl-2 (ab196495, 1:1,000, Abcam), Bax (#14796, 1:1,000, Cell Signal Technology, Danvers, MA, USA), cleaved-caspase3 (#9664, 1:1,000, Cell Signal Technology), caspase3 (#9662, 1:1,000, Cell Signal Technology), and β-actin (AF0003, 1:1,000, Beyotime). The membrane was incubated with primary antibodies for 15 hours at 4°C and then incubated with horseradish peroxidase-labeled secondary antibodies (A0208, A0216, 1:5,000, Beyotime) for 3 hours at room temperature. The protein bands were detected using chemiluminescence reagents (Beyotime). Quantification was performed using ImageJ software.
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10

Protein Expression Analysis Protocol

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Cells were lysed in RIPA Lysis Buffer (Beyotime) and mixed with PMSF (Beyotime), and protein concentrations of the resulting lysates were quantified using a BCA Protein Assay Kit (Beyotime). A total of 30 μg of protein from each sample was separated using SDS-PAGE on a 10% gel and transferred to a polyvinylidene fluoride membrane. The membranes were probed with the following antibodies: 1:1000 rabbit polyclonal anti-CHERP antibody (ab15951, Abcam); 1:1000 rabbit polyclonal anti-cleaved caspase-3 antibody (AC033, Beyotime); mTOR substrate antibodies (9862, CST); 1:800 polyclonal anti-DR5/TNFRSF10B antibody (BS60081, Bioworld); 1:1000 polyclonal anti-Bip antibody (3177, CST); 1:1000 CHOP polyclonal antibody (2895, CST); 1:500 AKT polyclonal antibody (4691, CST); 1:1000 polyclonal anti-P-Akt (Ser473) antibody (4060, CST); 1:800 polyclonal anti-cleaved caspase-8 antibody (E1A5267, EnoGene); and 1:800 polyclonal anti-ATF4 antibody (E2A6008, EnoGene). For the cell cycle protein assay, either a cell cycle regulation antibody sampler kit (9932, CST) or a 1:2000 α-tubulin mouse polyclonal antibody (AT819, Beyotime) was used. The secondary antibodies utilized were horseradish peroxidase-conjugated goat anti-mouse (A0216, Beyotime) and goat anti-rabbit IgG (A0208, Beyotime).
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