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5 protocols using facs diva data acquisition and analysis software

1

Characterization of MUC1 Microparticles

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Size determination of MVsMUC1 was performed by Nanoparticle Tracking Analysis (NTA) technology (30 (link)). MVs were thawed on ice and diluted in PBS between 1:500 and 1:20,000 to achieve the optimal number of MVs/mL. Three videos (30 s each) were recorded for each sample loading, employing the NanoSight NS300 instrument (Malvern Instruments Ltd, Malvern, UK). Measurements were performed employing the NTA 2.3 analytical software. Results were shown as the average of the three recordings.
MUC1 expression on MVsMUC1 was evaluated by flow cytometry. MVsMUC1 (5 μg/sample) were incubated with the anti-MUC1 MoAb Ma552 (Monosan) (1:100 for 30 min, 50 μL/sample, RT). After washing in PBS w/o Mg++ and Ca++(1 mL/sample, 30 min at 13,000 rpm, RT), MVsMUC1 were incubated with FITC-conjugated anti-mouse antibody (1:600; Jackson-Immunoresearch Laboratories, 50 μL/sample). MoAb MOPC21 (1:100; Sigma-Aldrich) was employed as isotype control. To exclude background noise, flow cytometry analysis was performed setting the lowest Forward Scatter Threshold [300] and the highest FSC/SSC voltage. A total of 30,000 events were acquired with low flow rate, using a FACSCanto II flow cytometer running FACSDiva data acquisition and analysis software (Becton Dickinson).
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2

T Cell Activation and Cytokine Profiling

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On day 6, differently treated DCs were collected and plated in 75x10 4 cells/sample in 200 L of complete RPMI 1640 medium in 96 well plates (Corning Incorporated, New York, USA). Autologous CD4 + CD45RA + purified T cells (Miltenyi) were added to DC cultures at 1:2 ratio. After 4 days of coculture, cells were stimulated with PMA (25 ng/mL) (Sigma) and Ionomycin (250 ng/mL) (Sigma) and were incubated with Brefeldin A (10 mg/mL, Sigma) for 16 to 18 hours at 37°C and 5%CO 2 . T cells were collected, fixed, and permeabilized with Saponin (Sigma) solution at 0,5%. Intracellular staining was performed using the following MoAbs: FITC-conjugate anti-IFN (Biolegend, San Diego, CA), APC-conjugate anti-IL17A (eBioscience), PE-conjugate IL10 (BD pharmingen, San Diego, CA) and PerCP/Cy5.5-conjugate anti-IL4 (Biolegend). Stained cells were analysed by FACSCanto flow cytometer (Becton Dickinson) running FACSDiva data acquisition and analysis software (Becton
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3

Phenotypic Analysis of Dendritic Cells

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DC phenotype was analyzed by flow cytometry. Briefly, DCs were harvested, washed in phosphate-buffered saline (PBS) and resuspended at 106 cells/ml. Each experimental sample was of 2 × 105 cells/tube (BD Biosciences, NJ, USA), cells were incubated with specific fluorochrome-conjugated antibodies for 30 min at 4°C in the dark. After washing in PBS (two times), the cells were analyzed. The following monoclonal antibodies (mAb) were used: anti-HLAII-DR-APCH7 and anti-CD86-Pecy7, from BD Biosciences; anti-CD14-BB700, anti-CCR7-AlexaFlour647, anti-CD83-Pe, anti-CD40-BB515, anti-ICOS-L-Pe from BioLegend (San Diego, CA); and anti-VEGFR-1-PE from R&D Systems. MoAbs anti-IgG1-BB515, -PE, -Pecy7, and -BB700; -AlexaFluor647; and -APC-H7 (BioLegend) were used as isotype controls. All mAbs were purchased from BD Biosciences and BioLegend. Flow cytometry analysis was performed using FACSCanto II flow cytometer running FACS Diva data acquisition and analysis software (BD Biosciences).
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4

Cell Cycle Analysis of Cabozantinib Treatment

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Cells were seeded in a six-well plate (Corning Incorporated; 2.5 × 104 cell/ml) and allowed to adapt overnight. Cells were then treated with serial dilution of Cabozantinib (2.5 and 5 μg/ml) for 24 and 48 h. The cells were fixed in 70% cold ethanol and incubated at 4°C overnight. The cells were incubated with RNaseA (Sigma-Aldrich) for 30 min and stained with propidium iodide (PI) (BD Pharmingen, San Diego, CA, USA). Flow cytometry was performed using FACSCanto II flow cytometer running FACS Diva data acquisition and analysis software (BD Biosciences).
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5

Cabozantinib-induced Apoptosis Assay

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Cells were seeded in six-well plates (Corning Incorporated; 2.5 × 104 cell/ml) and left to adhere overnight. Cells were treated with serial dilution of Cabozantinib (2.5 and 5 μg/ml) for 24 and 48 h. As control, untreated cells were used. At the end of each time point, cells were harvested by trypsinization (1×, Sigma-Aldrich), resuspended at 106 cells/ml in 1× Annexin V Binding Buffer (BD Biosciences). Cells were stained with 7-AAD and Annexin V-FITC (BD Biosciences) for 15 min to assess cell death. Flow cytometry was performed using FACSCanto II flow cytometer running FACS Diva data acquisition and analysis software (BD Biosciences).
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