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106 protocols using anti cd63

1

Exosome Characterization via Western Blotting

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In exosome characterization, uranyl acetate solution (TAAB, England) was used for exosome staining. For the western blotting, the protein lysis buffer (St. Louis, USA), bicinchoninic acid (BCA)-assay (Cat No: DB9684-50ml, DNAbiotech Co. Tehran, Iran), polyvinylidene fluoride (PVDF) membranes (Millipore, Billerica, Massachusetts, United States), antibodies from Santa Cruz Biotechnology including anti- CD9 (sc-13118, Dallas, USA), anti-CD81(sc-166029, Dallas, USA) and anti-CD63 (sc-5275, Dallas, USA), anti-Calnexin (sc-23954, Dallas, USA) and anti-Mouse IgG (Goat), HRP Conjugated (1: 10 000; Santa Cruz, sc-2005). For RNA isolation, TRIzol (RiboEx.LS, Seoul, South Korea), isopropyl alcohol, and ethanol from Merck, Germany. The miRCURY LNA RT Kit (Cat No./ID: 339340, Hilden, Germany), miRCURY LNA miRNA Focus PCR Panel (Cat. no. YAHS-102Y, Hilden, Germany), cel-miR-39 Spike-in (Norgen Biotek, Thorold, Canada), RevertAid Reverse Transcriptase (Thermo Scientific, Kaunas, Lithuania), SYBR Green master mix (RealQ Plus 2x Master Mix Green, Ampliqon, Denmark) and primers purchased from (Macrogen, Seoul, South Korea).
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2

Immunoblotting of Protein Complexes

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Immunoprecipitated protein was lysed in RIPA buffer (Beyotime, P0013B) and loaded into 12% SDS-PAGE gels to be transferred onto a PVDF membrane (Millipore, IPVH00010). The primary antibody at dilutions recommended by the suppliers was anti-ASGRP1 (Santa Cruz Biotechnology, sc-52623), anti-CD63 (Santa Cruz Biotechnology, sc-5275), anti-CD9 (Santa Cruz Biotechnology, sc-13118), anti-villin (Santa Cruz Biotechnology, sc-58897), anti-GFP (Cell Signaling Technology, 2956S), anti-mCherry (Abcam, ab167453), anti-β-actin (Cell Signaling Technology, 4,970).
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3

Protein Extraction and Western Blotting

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Protein extraction and Western blotting experiments were performed as described previously [12 (link)]. Primary antibodies used were as follow: anti-TGF-β1, CDK4, c-Myc, CyclinD3, p27, phospho-Akt, Akt, phospho-Erk1/2, Erk1/2, phospho-JNK, JNK, phospho-p38, p38, phospho-Smad 2, Smad 2/3, Smad 4, and Histone H3 (Cell Signaling, Danvers, MA); anti-CD63, CD81, and CD9 (Santa Cruz, Santa Cruz, CA); and anti-β-actin (Sigma-Aldrich). HRP-conjugated horse anti-mouse and goat anti-rabbit IgG (Cell Signaling) were used as secondary antibodies.
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4

Western Blot Antibody Validation

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The nitrocellulose membranes were blocked and antibodies were applied in 5% milk in TRIS-buffered saline/Tween-20 (TBST, 0.1M TRIS-HCl, 0.9% [w/v] NaCl, 0.1% [v/v] Tween-20, pH 7.5). The antibodies used were anti-NF45/ILF2 (Bethyl, A303-147A-M), anti-DHX9 (Bethyl, A300-855A-M), anti-Matrin-3 (Bethyl, A300-591A-M), anti-hnRNPA1 (Novus, NB100-672), anti-Caprin-1 (Proteintech, 15112-1-AP), anti-GST (Santa Cruz, sc-459), anti-DDX3X (Sigma, HPA001648), anti-actin (Santa Cruz, sc-1616), anti-FLAG (Sigma, A8592), anti-Alix (Santa Cruz, sc-49268), anti-TSG101 (GeneTex, GTX70255), anti-CD63 (Santa Cruz, sc-15363), and anti-Histone H3 (Cell Signaling Technology, 9715). The immunoblotting images were acquired with the Chemidoc MP Imaging System (Bio-Rad) and quantified with the Image Lab software (Bio-Rad).
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5

Exosomal Protein Isolation and Detection

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Isolated exosomes were lysed using a RIPA buffer (Sigma-Aldrich Co.) containing 50 mM Tris-HCl, pH 8.0, 150 mM sodium chloride, 1.0% Igepal, 0.5% sodium deoxycholate, 0.1% sodium dodecyl sulfate and the protease inhibitor cocktail. The total protein concentration in exosomes extracts was determined by the bicinchoninic acid assay (Thermo Scientific, Waltham, MA). Subsequently, exosomes were resuspended in the loading buffer and boiled at 99 °C for 5 min. Equal volume or equal protein amount of sample was mixed with reducing Laemmli-buffer and was loaded on 4–20% Tris-glycine sodium dodecyl sulfate-polyacrylamide gels (Bio-Rad, Hercules, CA, US), and electrophoresed. Proteins were transferred to polyvinylidene difluoride (Bio-Rad, Hercules, CA, US). Membranes were blocked in 5% non-fat milk (Bio-Rad, Hercules, CA, US) in Tris-buffered saline supplemented with 0.05% Tween-20 (TBS-T) for 2 h, and then were incubated with primary antibodies: anti-CD63 [1:500; Santa Cruz Biotechnology, Dallas, TX, US sc:15363], anti-Histon H3 [1:500; St John’s Labolatory STJ93527] for 16 h at 4 °C. After 3 washes in TBS-T, membranes were incubated with corresponding HRP-conjugated secondary antibodies for 2 h at room temperature and washed in TBS-T. Signals were visualized after incubation with enhanced chemiluminescence kit (Bio-Rad, Hercules, CA, US) by Chemidoc Touch (Bio-Rad, Hercules, CA, US).
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6

Exosome and Cell Protein Analysis

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Cells and exosomes were lysed by a RIPA buffer for 30 min at 4°C. Protein extracts were resolved by SDS–PAGE and blotted to nitrocellulose membranes and probed with the following antibodies: anti-GAPDH, anti-CD80, anti-CD63, and anti-calnexin (Santa Cruz, Dallas, TX, USA), as well as anti-lysosomal acid lipase/LAL (Abcam, Cambridge, UK). For antibody detection we used anti-rabbit IgG-HRP (Cell Signaling Technology, Danvers, MA, USA) or m-IgGκ BP-HRP (Santa Cruz, Dallas, TX, USA).
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7

LUAD Tissue Protein Analysis Protocol

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A total of 16 human LUAD tissue samples were obtained from Tianjin Medical University Cancer Institute and Hospital and informed consent was provided by all patients. Total protein was prepared in RIPA buffer (Solarbio, Beijing, China). Each sample was separated by a 10% SDS‐PAGE gel and transferred to a PVDF membrane. After blocking for two hours with 5% BSA, membranes were incubated overnight at 4°C with the primary antibodies, anti‐CD63 (Santa Cruz), anti‐tsg101 (Santa Cruz), anti‐ICOS (Abcam), and anti‐β‐actin (ZSGB‐BIO, China). The blots were incubated with secondary antibodies (ZSGB‐BIO, China) (1:2000) for one hour at room temperature, followed by detection with ECL reagents (Pierce). Protein levels were quantified using ImageJ software.
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8

Characterization of Nanoparticle Size and Exosome Markers

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The size distribution and concentration of the nanoparticles before and after treatment were characterized by NTA. Each NTA video was 60 s, and each result was averaged by at least three tests. The concentration of the preprocessed polydisperse sample in the NTA test was diluted to guarantee that there were 70 to 120 particles per frame to ensure statistics and suppress the overlapping effect. For monodisperse samples, at least 10 particles per frame were guaranteed.
For protein extraction and Western blot, plasma samples were lysed with lysis buffer and subjected to 10% SDS–polyacrylamide gel electrophoresis gels and transferred to a polyvinylidene difluoride membrane. Anti-CD63 (1:200; Santa Cruz Biotechnology) and anti-CD81 (1:200; Santa Cruz Biotechnology) antibodies were used as primary antibodies to confirm the presence of exosomes. The bound primary antibody was detected by peroxidase-conjugated goat anti-rabbit immunoglobulin G (Sigma-Aldrich) and the ECL Western blot analysis system (Millipore). Each experiment was performed at least three times.
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9

Immunofluorescence Analysis of Exosome Markers

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Cells were plated in a Labtek Chamber slide at a density of 2 × 104 cells/mL After three days, when the cells had reached near confluency, medium was removed from the cells and they were washed with PBS. After fixation with methanol 100% for 5 min, hPDLSC were incubated over night at 4 °C with primary antibodies. The antibodies used in this study include the following: anti-CD9 (monoclonal mouse, IgG1k, 1:1000, BioLegend, San Diego, CA, USA), anti-CD63 (monoclonal mouse, IgG1k, 1:500, Santa Cruz Biotechnology, Inc., Dallas, TX, USA), and anti-ALIX (monoclonal mouse, IgG1k,1:500, Santa Cruz Biotechnology, Inc., Dallas, TX, USA). For negative controls, the primary antibody was replaced by non-immune serum (mouse IgG, 1:500, Sigma-Aldrich, Saint-Louis, MO, USA). Then a secondary goat anti mouse AlexaFluor488 antibody (LSBio, Seattle, WA, USA) was applied for 1 h at RT. Counterstaining was performed using Hoechst-dye (1:2000, Sigma-Aldrich, Saint-Louis, MO, USA). Observations were performed using an Upright Widefield Microscope Leica DMRXA2 (Leica Microsystemes, Wetzlar, Germany).
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10

Exosomal Protein Analysis by Western Blot

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Lysates of cells or exosomes were diluted at a ratio of 1:5 with protein loading buffer (5×; Beyotime Biotechnology, Jiangsu, China) and heated at 95 °C for 5 min. Protein extracts were separated by SDS-PAGE (6% gel for DMBT1 and 12% gel for other proteins) and transferred to polyvinylidene fluoride membranes (Immobilon P, Millipore, USA). The membranes were blocked with 5% milk in TBST (Tris-buffered saline, 10 mM Tris-HCl pH 7.5, 150 mM NaCl, 0.1% Tween-20) for 60 min at room temperature, incubated with primary antibodies at 4 °C overnight and then incubated with the horseradish peroxidase-conjugated secondary antibodies at 37 °C for 1 h. Primary antibodies and dilutions were used as follows: anti-CD9 (1:500; Santa Cruz), anti-CD63 (1:300; Santa Cruz), anti-CD81 (1:500; Santa Cruz), TSG101 (1:1000; ProteinTech, Chicago, USA), anti-DMBT1 (1:5000; Abcam, Cambridge, Britain), anti-VEGF-A (1:500; R&D system, Minneapolis, USA), Akt (1:500; Cell Signaling Technology, Danvers, USA), anti-phosphorylate Akt (p-Akt; 1:500; Cell Signaling Technology) and anti-GAPDH (1:5000; Cell Signaling Technology). All the secondary antibodies (1:5000) were obtained from Cell Signaling Technology. The immunoreactive bands were visualized using enhanced chemiluminescence reagent (Thermo Fisher Scientific, Waltham, USA) and imaged by the ChemiDoc XRS Plus luminescent image analyser (Bio-Rad).
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