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Nupage novex 4 12 bis tris

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The NuPAGE Novex 4-12% Bis-Tris is a pre-cast polyacrylamide gel used for protein separation and analysis. It features a Bis-Tris buffer system and a 4-12% gradient for resolving a wide range of protein sizes.

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11 protocols using nupage novex 4 12 bis tris

1

Exosomal Protein Identification via Immunoblotting

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Immunoblotting followed the same method done by Almughlliq, et al.25 (link) to identify the exosomal fractions, which were then pooled accordingly. Exosomes (10 µg protein) were further characterized using gel electrophoresis (NuPAGE Novex 4–12% Bis-Tris, Thermo Fisher Scientific Australia Pty Ltd, Scoresby Vic) for confirmation of exosomal markers Flotillin 1 (FLOT1) and tumor susceptibility gene 101 (TSG101). The gel was then transferred to a PVDF membrane (Bio-Rad Laboratories Pty., Ltd, Australia) using Trans-Blot Turbo system (Bio-Rad Laboratories Pty., Ltd, Australia). After blocking (5% skim milk powder), membranes were probed overnight with primary antibodies anti-FLOT1 (1:500; Abcam, Cambridge, United Kingdom) and, anti-TSG101 (1:500; Abcam, Cambridge, United Kingdom) at 4 °C, followed by secondary anti-rabbit IgG (1:1000 Sigma–Aldrich, St Louis, MO, USA) and secondary anti-goat (1:1000; Sigma–Aldrich, St Louis, MO, USA), respectively. Membranes were then covered with SuperSignal West Dura-Extended Duration Substrate (Thermo Fisher Scientific Australia Pty Ltd, Scoresby Vic). Targeted proteins were visualized on X-ray films using Konica SRX101A processor (Konica Minolta medical and graphic INC, Japan).
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2

Quantitative Western Blot Analysis

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Cell pellets were lysed in RIPA lysis buffer (Thermo Fisher Scientific, Waltham, MA, USA) supplemented with protease and phosphatase inhibitors. Total protein concentrations were quantified using a Pierce BCA Protein Assay Kit (Thermo Fisher Scientific, Waltham, MA, USA). For the synaptopodin, podocalyxin and aquaporin 1 Western blot, 10 μg total protein were loaded, while for the Cystinosin-3HA Western blot, 15 μg total protein was loaded on a precast gel NuPAGE Novex 4–12% Bis–Tris (Thermo Fisher Scientific, Waltham, MA, USA) and transferred on a nitrocellulose membrane using an iBlot2 dry blotting system.
Membranes were incubated overnight at 4 °C with primary antibodies against aquaporin 1, synaptopodin, podocalyxin and β-Actin on a blocking buffer. Next, membranes were incubated with HRP-linked secondary antibodies anti-rabbit or mouse in a 1:2000 dilution in 5% milk in TBS-T. Proteins were visualized using ECL Substrate (Thermo Fisher Scientific, Waltham, MA, USA). Images were acquired using the Syngene Chemi XRQ System and quantified with ImageJ software.
The specification of all antibodies is described in Table S3.
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3

Quantification of DNA Damage Markers

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Cells were collected in dPBS by scraping and lysed in RIPA lysis and extraction buffer (Thermo Fisher Scientific) supplemented with protease (Merck Sigma) and phosphatase (Merck Sigma) inhibitors. Extracted proteins were quantified using the Pierce BCA Protein Assay Kit (Thermo Fisher Scientific). Subsequently, 40 µg of protein was loaded on a precast gel NuPAGE Novex 4–12% Bis-Tris (Thermo Fisher Scientific). Proteins were then transferred onto a nitrocellulose membrane using an iBlot2 dry blotting system with iBlot2 transfer stacks (Thermo Fisher Scientific). Membranes were incubated for 1 h at room temperature in a blocking solution of 5% BSA in Tris buffer saline 0.05% Tween-20 (TBS-T). Subsequently, the membranes were incubated overnight at 4 °C with primary antibodies against γh2AX (1:2000) (Merck Millipore#05-636) and actin (1:5000) (Sigma-aldrich #A5441). The next day, membranes were incubated with HRP-linked anti-mouse secondary antibody (Cell Signaling Technology, 7076S) used at a dilution of 1:4000 in 5% milk in TBS-T. Bound antibodies were visualized using SuperSignal West Femto Maximum Sensitivity Substrate (Thermo Fisher Scientific). Images were acquired using the ImageQuant LAS 4000 (GE Healthcare).
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4

Exosomal Marker Confirmation via Gel Electrophoresis

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Exosomes (10 µg of protein) were further characterized using gel electrophoresis (NuPAGE Novex 4-12% Bis-Tris, Thermo Fisher Scientific Australia Pty. Ltd.) for confirmation of exosomal markers flotillin 1 and tumor susceptibility gene 101. The gel was then transferred to a PVDF membrane (Bio-Rad Laboratories Pty. Ltd., Gladesville, New South Wales, Australia) using Trans-Blot Turbo system (Bio-Rad Laboratories Pty. Ltd.). After blocking (5% skim milk powder), membranes were probed overnight with primary antibodies anti-flotillin 1 (Abcam, Cambridge, UK) and anti-tumor susceptibility gene 101 (Abcam) at 4°C, followed by secondary anti-rabbit IgG (Sigma-Aldrich) and secondary anti-goat (Sigma-Aldrich), respectively. Membranes were then covered with SuperSignal West Dura-Extended Duration Substrate (Thermo Fisher Scientific Australia Pty. Ltd.). Targeted proteins were visualized on x-ray films using a Konica SRX101A processor (Konica Minolta Inc. Medical and Graphic, Tokyo, Japan).
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5

Whole-cell Protein Extraction and Analysis

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To prepare whole-cell extracts, cells were washed once in 1xPBS, harvested by trypsinization, washed in 1xPBS and re-suspended in SDS-PAGE loading buffer, supplemented with 0.1 mM DTT. Samples were sonicated and heated at 70 °C for 10 min. Equal amounts of protein (50–100 µg) were analyzed by gel electrophoresis followed by western blotting. NuPAGE-Novex 4–12% Bis-Tris and NuPAGE-Novex 3–8% Tris-Acetate gels (Life Technologies) were run according to manufacturer’s instructions. Uncropped scans are provided in the Source Data file.
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6

Western Blot Analysis of Cyclic Nucleotide Phosphodiesterases

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Lysates were run on either denaturing NuPAGE Novex 4-12% Bis-Tris or NativePAGE Novex 4-16% Bis-Tris gels, as per manufacturer’s instruction (Life Technologies). Blots were probed overnight at 4°C with antibodies recognizing PDE11A (1:500, PD11A-112AP FabGennix—Frisco, TX [4 (link)-6 (link)]), PDE2A (1:1000, PD2A-101AP FabGennix [38 (link)] ), PDE10A (1:2500, Enzo Life Science; Farmingdale, NY [39 (link)]), actin (1:10,000, A2066 Sigma; St. Louis, MO), IL-6 (1:200, MAB406 R&D Systems; Minneapolis, MN [40 ]), GFP (1:2000, sc-8334 Santa Cruz; Dallas, TX), or RFP (1:10,000, A00682 Genscript). Blots were then processed as previously published [4 (link), 6 (link), 41 (link)].
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7

Western Blot Analysis of Cyclic Nucleotide Phosphodiesterases

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Lysates were run on either denaturing NuPAGE Novex 4-12% Bis-Tris or NativePAGE Novex 4-16% Bis-Tris gels, as per manufacturer’s instruction (Life Technologies). Blots were probed overnight at 4°C with antibodies recognizing PDE11A (1:500, PD11A-112AP FabGennix—Frisco, TX [4 (link)-6 (link)]), PDE2A (1:1000, PD2A-101AP FabGennix [38 (link)] ), PDE10A (1:2500, Enzo Life Science; Farmingdale, NY [39 (link)]), actin (1:10,000, A2066 Sigma; St. Louis, MO), IL-6 (1:200, MAB406 R&D Systems; Minneapolis, MN [40 ]), GFP (1:2000, sc-8334 Santa Cruz; Dallas, TX), or RFP (1:10,000, A00682 Genscript). Blots were then processed as previously published [4 (link), 6 (link), 41 (link)].
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8

Western Blot Analysis of Protein Extracts

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Total, nuclear or cytoplasmic protein extracts, or IP samples were prepared in NuPAGE 4X loading buffer (Life Technologies) and 10X reducing agent and hit at 96°C for 5 min. Separations of proteins were performed using pre-cast polyacrylamide gel cassettes (NuPAGE® Novex® 4-12% Bis-Tris) (Life technologies) and 1X NuPAGE MOPS SDS Running Buffer and transferred into nitrocellulose membranes in 20 mM phosphate transfer buffer (pH 6.7). Membranes were blocked in PBS supplemented with 0.1% Tween 20 and 5% non-fat dried milk and incubated with primary antibodies. Primary antibodies were detected with IRDYE- conjugated secondary antibodies and scanned on the LI-COR imaging system. Quantification of bands was performed with LI-COR software.
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9

Western Blot Protein Analysis Protocol

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Total, nuclear or cytoplasmic protein extracts, or IP samples were prepared in NuPAGE 4X loading buffer (Life Technologies) and 10X reducing agent and hit at 96°C for 5 min. Separations of proteins were performed using pre-cast polyacrylamide gel cassettes (NuPAGE® Novex® 4-12% Bis-Tris) (Life technologies) and 1X NuPAGE MOPS SDS Running Buffer and transferred into nitrocellulose membranes in 20 mM phosphate transfer buffer (pH 6.7). Membranes were blocked in PBS supplemented with 0.1% Tween 20 and 5% nonfat dried milk and incubated with primary antibodies.
Primary antibodies were detected with IRDYE-conjugated secondary antibodies and scanned on the LI-COR imaging system. Quantification of bands was performed with LI-COR software.
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10

Evaluating Purity of Recombinant Antibodies

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Example 11

To assess the purity and integrity of recombinant human NI-308 antibodies. In brief, human NI-308 antibodies were expressed by transient transfections of CHO-S cells and purified by protein A affinity purification on an FPLC system (ÄKTApurifier; GE Healthcare Life Sciences). After PD-10 column (GE Healthcare Life Sciences) desalting, antibodies were formulated in PBS. Five μg of purified recombinant human NI-308 antibodies were resolved under reducing conditions by gradient SDS-PAGE (Novex® Bis-Tris NuPAGE® 4-12%; Life Technologies Europe B.V., Zug, Switzerland) using Novex® NuPAGE® MES SDS Running Buffer complemented with antioxidant (Life Technologies Europe B.V., Zug, Switzerland) followed by Coomassie blue staining (Novex® SimplyBlue™ SafeStain, Life Technologies Europe B.V., Zug, Switzerland). As a result, SDS-PAGE analysis under reducing conditions of the recombinant human NI-308 antibodies revealed two major bands corresponding to the antibody heavy and light chains at the expected size. No significant contaminations or proteolytic degradation products were detectable (FIG. 13).

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