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17 protocols using protein loading buffer

1

Protein Extraction and Denaturation

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The proximal small intestine samples and HIEC-6 cells were lysed using RIPA buffer (Solarbio, R0010) and denatured by heating in the presence of protein loading buffer (Solarbio, P1016) according to the manufacturer's instructions. Serum and plasma samples were diluted with distilled water and subsequently denatured by heating in the presence of protein loading buffer (Solarbio, P1016). The culture media of HIEC-6 cells were collected and centrifuged at 12,000 rpm for 5 min at 4 °C. The supernatant was denatured by heating at 95 °C with protein loading buffer (Solarbio, P1016) according to the manufacturer's instructions. Antibodies for immunoblotting are listed in Table S2.
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2

Western Blot Analytical Workflow

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The cells were lysed using RIPA buffer (Solarbio, Beijing, China) containing 1% phenylmethanesulfonyl fluoride (PMSF) (Solarbio) and 1% phosphatase inhibitors (Solarbio). A BCA Kit (Beyotime Biotechnology, Shanghai, China) was used for protein quantification. Protein loading buffer (Solarbio) was added to make proteins fully bind to sodium dodecyl sulphate after denaturation. The protein samples were stored at −80°C until use. The proteins were separated via electrophoresis, transferred on to polyvinylidene fluoride membranes, and blocked with 5% bovine serum albumin (BSA; Solarbio). The membranes were incubated overnight in 5% BSA containing rabbit anti‐human cofilin‐1 or β‐actin antibodies (Cell Signaling Technology, Danvers, MA, USA) at a dilution of 1:1000. After washing with TBS +1% Tween (TBST; Solarbio) three times, the membranes were incubated for 1 h in 5% BSA containing goat anti‐rabbit peroxidase‐conjugated secondary antibodies (Cell Signaling Technology) at a dilution of 1:2000. Super ECL Plus Detection Reagent (Cell Signaling Technology) was used for signal detection. The detected signals were quantified using ImageJ 1.8.0.112 (U.S. National Institutes of Health, Bethesda, MD, USA).
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3

Western Blot Analysis of Hypoxic Regulators

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Cells or tissue samples were lysed in RIPA buffer (Beyotime, Shanghai, China) mixed with protein loading buffer (Solarbio, Beijing, China). Extracted protein were loaded onto SDS-polyacrylamide gels and fully electrophoresed. After separation, proteins were transferred to PVDF membranes. Membranes were incubated with specific primary antibodies (at 1:1000 dilution) and HRP-conjugated secondary antibodies (at 1:10000 dilution). The protein level was detected with an enhanced chemiluminescence system (Tanon, Shanghai, China). The following primary antibodies were used: anti-METTL3 (ab195352, abcam, UK), anti-PLOD2 (21214-1-AP, proteintch, USA), anti-HIF-1α (ab179483, abcam, UK), anti-HIF-2α (ab8365, abcam, UK), anti-GAPDH (ab011, Multi Sciences, Hangzhou, China). All of the experiments were performed at least three times, and the most representative results were shown. The original western blots can be found in Supplemental Material.
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4

Co-Immunoprecipitation of Protein Complexes

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Co-IP assays were performed as described by Zhang et al. (2014 (link)). The transfected 293 T cells were harvested and lysed with lysis buffer (1 M Tris-HCl, pH 7.4, 5 M NaCl, 0.5 M EDTA, 1% Triton X-100, and protease inhibitors). The cell lysates were centrifuged at 12,000 rpm for 5 min, and the supernatant was collected and incubated overnight with anti-FLAG M2 affinity antibody (Sigma-Aldrich, A2220) at 4°C and washed 4 times with ice-cold lysis buffer. The samples were eluted with protein loading buffer (Solarbio, P1040) and subjected to SDS-PAGE and Western blotting with anti-Myc antibody (1:1,000) or anti-Flag tag antibody (1:1,000).
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5

Virus Infection Assay in LMH Cells

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The LMH cells were seeded in 12-well plate the day before infection. The recombinant virus with 0.1 MOI was then inoculated into the LMH cells. At 48 hpi, the LMH cells and supernatants were harvested, the cells were then washed once with PBS buffer, and subsequently lysed in 100 μl lysis buffer with proteolytic protease and phosphatase inhibitor cocktail (NCM, Soochow, China). The lysates were then centrifuged at 12,000 rpm for 10 min to remove debris, the supernatants of lysates or supernatants collected from the 12-well plate were then boiled with protein loading buffer (Solarbio, Beijing, China). The samples were separated on a 10% SDS-PAGE gel and transferred onto nitrocellulose membranes (Cytiva, MA, USA). The membranes were then blocked with NCMblot blocking buffer (NCM, Soochow, China) for 30 min at room temperature (RT), and incubated with corresponding antibodies. After being washed with PBST for three times, the membranes were then incubated with HRP-labeled secondary antibodies for 1 h at RT. After another three washes, the membranes were developed with chemiluminescent regents and imaged with an automatic imaging system (Tanon 5200).
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6

Quantification of CYP Enzyme Levels

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Trizol and HPLC-grade acetonitrile were purchased from Thermo Fisher Scientific (Waltham, MA, United States). LB was supplied by National Institute for the Control of Pharmaceutical and Biological Products (Beijing, China). Pterostilbene (used as the IS, Figure 1B) was purchased from Great Forest Biomedical Ltd. (Hangzhou, China). NADPH-regenerating solution was obtained from iPhase Pharmaceutical Services (Beijing, China, containing 21.7 mM of NADP+, 55 mM of G-6-P, 6.67 U/mL of G-6-PDH and 55 mM of MgCl2). Cimetidine, α-naphthoflavone, quinindium, 4-methylpyrazole, and ketoconazole were from J&K Chemical (Beijing, China). Oligo(dT) 15 primer, RNase-free water, RNasin Plus RNase Inhibitor, 5× M-MLV Reverse Transcriptase buffer, M-MLV Reverse Transcriptase and dNTPs were obtained from Promega Corporation (Madison, WI, United States). SYBR® Premix Ex Taq™ (Tli RNaseH Plus) was from TAKARA BIO INC. (Dalian, China). Enhanced RIPA lysis buffer and protein loading buffer were purchased from Solarbio Life Sciences (Beijing, China). Primary antibodies of CYP1A2, CYP2C11, CYP2D1, CYP2E1, and CYP3A2 were supplied by Abcam PLC (Cambridge, United Kingdom). Primary antibody of GAPDH was from Beyotime Biotechnology (Shanghai, China) and HRP-conjugated secondary antibody was from ComWin Biotech Co., Ltd. (Beijing, China). All other chemicals and solvents were of analytical grade.
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7

Cellular Signaling Pathway Analysis

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Primary antibodies including IκB-α, p-IκBα, and NF-κB-p65 were purchased from Cell Signaling Technology (Danvers, MA, USA). Nrf-2, HO-1, and β-actin were purchased from Cambridge Bio (Boston, MA, USA). The NanoDrop 2000 Ultra Micro Spectrophotometer was purchased from Thermo Fisher Scientific (Pittsburgh, PA, USA). Gallic acid, sodium nitrite, the Prime Script TM RT Master Mix kit and TB Green® Premix Ex Taq TM were purchased from Biotech Co. Ltd. (Shanghai, China). Protein loading buffer, 20% SDS, electroporation solution and Tris-HCl buffer were purchased from Solarbio (Beijing, China). BCIP/NBT alkaline phosphatase developer and 40% Acr-Bis were purchased from Beyotime Biotechnology (Shanghai, China). The CCK-8 kit was purchased from Dojindo Laboratories (Kumamoto, Japan). Amberlite XAD-2 resin was purchased from Sigma-Aldrich Trading Co. Ltd. (Shanghai, China). Other chemicals, including the LPS (Escherichia coli 0127: B8) and alkaline phosphatase-conjugated secondary antibody (anti-rabbit IgG) and the standards applied in the chemical analysis were purchased from Sigma (St. Louis, MO, USA).
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8

Goat Ovarian Tissue Protein Extraction and Western Blot Analysis

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Goat ovarian tissues were incubated on ice for 30 min in 1.5 mL centrifuge tubes containing lysis buffer, and then centrifuged at 12,000× g for 10 min at 4 °C. The supernatant was collected and stored at −80 °C. The protein concentration was measured with a BCA assay kit (Solarbio, Beijing, China), and then 30 μg of protein was mixed with protein loading buffer (Solarbio, Beijing, China) and boiled at 99 °C for 10 min. The protein samples were then subjected to gel electrophoresis at 100 V on a 10% Bis-Tris gel. The proteins were transferred onto a nitrocellulose membrane and blocked at 4 °C overnight. Anti-PPP2R5C and anti-SLC39A5 were purchased from Proteintech company (Proteintech, Wuhan, China). All primary antibodies were diluted at 1:10,000 with primary antibody diluent (P0256-500 mL, Bain-marie, China) and washed three times with TBST before being washed with HRP-conjugated anti-rabbit IgG (Proteintech, Wuhan, China) with secondary antibody dilution (P0258-500 mL, Baymax, China) diluted to 1:5000 used to incubate the membrane for 2 h at room temperature. Western blots were visualized on an Odyssey CLX imaging system (Li-COR) (Bio-Rad, Hercules, CA, USA) with Supersignal HRP chemiluminescent substrate (Beyotime, Beijing, China) according to the manufacturer’s instructions.
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9

Immunoprecipitation and Western Blotting

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Lysate preparation and total protein extraction were performed as described in 2.4. For western blotting, 100 μL supernatant was used, and the remaining was used for immunoprecipitation. The samples were stored on ice until further use. Each 900 μL protein lysate sample was mixed with 1 μg immunoprecipitation antibodies and placed in the microcentrifuge tube rack of a rotary mixer. The instrument was placed in a refrigerator at 4 °C overnight. The next day, 1 μL premixed magnetic beads (Thermo Fisher Scienti c) was added to the sample, mixed gently, and incubated in a refrigerator at 4 °C for 1 h. The liquid was then discarded, and 900 μL pre-cooled lysis buffer containing a protease inhibitor was added, gently mixed and washed thrice. Next, 50 μL 1× protein loading buffer (Solarbio Life Science) was added, mixed well, boiled at 100 °C for 10 min, incubated on ice, and stored. The subsequent steps were the same as described in 2.4.
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10

Protein Extraction and Immunoprecipitation

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The steps for lysate preparation and total protein extraction were the same as those described for western blotting. For western blotting, 100 µL of protein was used, and the remaining protein supernatant was used for immunoprecipitation. The samples were stored in ice until further use. Each 900 µL protein lysate sample was mixed with 1 µg of immunoprecipitation antibodies and placed on the microcentrifuge tube rack of a rotary mixer. The instrument was placed in a refrigerator at 4°C overnight. The next day, 1 µL of pre-mixed magnetic beads (Thermo Fisher Scienti c, Waltham, MA, USA) were added to the sample, which was then mixed gently and incubated in a refrigerator at 4°C for 1 h. The liquid was then discarded, Loading [MathJax]/jax/output/CommonHTML/jax.js and 900 µL of pre-cooled lysis buffer containing a protease inhibitor was added, followed by gentle mixing and washing thrice. Next, 50 µL 1× protein loading buffer (Solarbio Life Science, Beijing, China) was added, and the sample was mixed well, boiled at 100°C for 10 min, incubated on ice, and stored. The subsequent steps were the same as those described for western blotting.
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