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10 protocols using acea novocyte 3000

1

Platelet Activation and Calcium Dynamics

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For externalized phosphatidylserine (PS) analysis, washed platelets were incubated with VSV-G or Spike pseudoparticles (1:10) for 10 min followed by activation with collagen (30 μg/ml) and thrombin (0.5 units, Sigma-Aldrich, Burlington, MA, United States) or vehicle for 15 min (350 rpm, 37°C; BioShake IQ). Platelets were stained with Annexin V-Pacific Blue (1:50; BioLegend, San Diego, CA, United States) and CD61-APC (1:100; BioLegend, San Diego, CA, United States) in annexin binding buffer for 20 min (350 rpm, 37°C; BioShake IQ). For Ca2+ levels analysis, washed platelets were stained with Fluo-4 AM (5 μM, Thermo Fisher Scientific, Waltham, MA, United States) for 30 min at 37°C followed by incubation with pseudoparticles (1:10) for 10 min. Platelet samples were activated with vehicle or collagen (30 μg/ml) for 15 min.
In both cases, samples were diluted with modified Tyrode’s HEPES buffer and analyzed on the ACEA Novocyte 3,000 (ACEA Biosciences, San Diego, CA, United States). Analysis was performed using the FlowJo software v.10 (TreeStar, Ashland, OR, United States).
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2

Immunophenotyping of Cell Cultures

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Cell cultures were washed in blocking-PBS buffer [1% Bovine Serum Albumin (Sigma-Aldrich) and 1% FBS in PBS 1X (Thermo Fisher Scientific)], stained with primary-conjugated antibodies (Additional Table 3), as well as with 0.2 μg/mL 4′,6-Diamidine-2′-phenylindole dihydrochloride (DAPI; Sigma-Aldrich) to select viable cells. Flow cytometry data were analyzed with ACEA Novocyte 3000 (Acea Bioscience Inc., USA), and results were processed with NovoExpress Software (Acea Bioscience Inc.)
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3

Platelet Activation Assessment by Flow Cytometry

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Pre- or post-sorted platelets were diluted in annexin binding buffer (1:1), incubated with phosphate buffered saline (PBS), thrombin receptor activator peptide-6 (TRAP-6; 30μM) or adenosine diphosphate (ADP; 30μM) along with CD42b-BV421 (1:60, Biolegend), PAC-1 FITC (1:12, BD Bioscience) and annexin V APC (1:60, Biolegend) for 30 minutes. Samples were analyzed on the ACEA Novocyte 3000 (ACEA Biosciences Inc.) and analysis was performed using NoVo Express 1.3.0 (ACEA Biosciences Inc.)
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4

Colon Tissue Analysis by Flow Cytometry

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The colon tissues were harvested for flow cytometry analysis according to a previously used method [24 (link)]. The colon tissues were incubated with a digestive solution of intestinal epithelial cells (HBSS, 1 mM EDTA, and 1 mM DTT) to remove intestinal epithelial cells, and then enzymatically digested in RPMI 1640 media containing collagenase IV (1 mg/mL), DNase I (0.3 mg/mL), and 5% FBS at 37 °C. The colonic lamina propria cells were harvested by centrifugation and blocked with PBS containing 2% BSA. M2Φ and DCs were labeled with CD45-APC-Cy7, CD11b-FITC, CD11c-PE-Cy7, MHCII-PE, F4/80-BV510, and CD206-APC antibodies. The pro-inflammatory monocytes, neutrophils, and G-MDSCs were labeled with CD45-FITC, CD11b-BB700, Ly6C-AF700, and Ly6G-BV605 antibodies. Tregs were labeled with CD45-APC-Cy7, CD3-Percp-cy5.5, CD4-FITC, and CD25-BV421. Intracellular FoxP3-PE was stained using an intracellular staining kit (BD Biosciences, USA). The cells were measured with a flow cytometer (ACEA NovoCyte 3000, Agilent, USA).
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5

In Vitro Thrombin-Induced Platelet Activation

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For the in vitro study of thrombin impact on platelet activation, whole citrated blood of healthy donors was centrifuged at 100g for 8 min, and PRP was collected. PRP was diluted 1/3 by sodium citrate (pH 5.5) and centrifuged at 400g for 5 min. Platelet pellet was resuspended in Tyrode's buffer w/o calcium. The resulting platelet suspension was once more diluted 1/3 by sodium citrate (pH 5.5) and centrifuged at 400g for 5 min. Platelet pellet was resuspended by Tyrode's buffer with calcium (2.5 mM) and left resting for 30 min. Then platelets were pre-incubated either with 500 nM of thrombin or with the vehicle for 10 min and then analyzed analogously to whole blood samples of the patients and healthy donors. Washed platelet samples were studied by Agilent Acea Novocyte 3000.
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6

Cellular Uptake of Fluorescent Nanoparticles

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The Caco-2 cells, L929 cells, and M1Φ were incubated with the coumarin 6-labeled PLGA NPs or CS-PLGA NPs for 1 h, respectively. The cells were harvested and fixed with 4% paraformaldehyde for 15 min and stained with DAPI for fluorescence imaging (Carl Zeiss, Oberkochen, Germany). The harvested cells were also analyzed by flow cytometry (ACEA NovoCyte 3000, Agilent, USA) for intracellular uptake efficiency.
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7

Murine Immune Cell Profiling by Flow Cytometry

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Following cell separation, murine macrophage and DC subsets were resuspended in FACS buffer (PBS supplemented with 2% FBS) (100ul/well) and incubated with CD16/CD32 (Mouse BD Fc Block) (BD Biosciences) to block non-specific binding. Then, samples were stained with labeling check reagent (Miltenyi Biotec), CD45-APC/APC-Vio770 (Biolegend), CD11c-PE-Cy7 (BD Biosciences), Siglec F-PerCP-efluor (BD Biosciences), CD11b-FITC (BD Biosciences), F4/80-PE (Miltenyi Biotec), Ly6c-APC (BioLegend), MHC II-Superbright 645 (Invitrogen), CD103-PerCP-efluor (BD Biosciences) CD24-APC (BioLegend) a viability dye (LIVE/DEAD Fixable yellow, Invitrogen). Following this, cells were incubated with antibodies for 30 minutes at 4°C then washed three times with FACS buffer and fixed with 2% formaldehyde. Samples were analyzed on an Acea Novocyte 3000 flow cytometer (Agilent Technologies, Santa Clara, CA), and data were analyzed using NovoExpress software (Agilent Technologies).
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8

Notch Ligand Expression Analysis

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For Notch ligand staining, UV-irradiated apoptotic cancer cells and viable cancer cells were incubated with an anti-Dll1, anti-Dll3, anti-Dll4, anti-Jag1, or anti-Jag2 antibody (1:100) in FACS buffer (PBS with 0.1% BSA and 0.1% sodium azide) for 30 min at RT. The cells were then incubated with an Alexa 488- or 594-conjugated secondary antibody in FACS buffer for 30 min at RT. After incubation, the cells were washed three times with FACS buffer, and the expression of Notch ligands was analyzed by flow cytometry (ACEA Novocyte 3000, Agilent, Santa Clara, CA, USA).
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9

Evaluating MPDA NPs Cellular Uptake

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The CT26 cells were seeded in a 12-well plate with 1 × 105 cells/well and cultured for 12 h. The cells were treated with equivalent 5-FITC dye-encapsulated MPDA NPs for 4 h and the intracellular fluorescence was detected by flow cytometry (ACEA NovoCyte 3000, Agilent, USA). Furthermore, the optimal ratio of MPDA and HN2-HA was evaluated by uptake efficiency. Besides, the cells were treated with equivalent coumarin-6 dye-encapsulated MPDA NPs and fluorescent images were obtained by the inverted fluorescence microscope (CARL ZEISS, Oberkochen, Germany).
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10

Inducing Apoptosis and Necrosis in Cancer Cells

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Apoptosis was induced by exposing epithelial cancer cell lines to UV irradiation at 254 nm for 15 min followed by incubation in RPMI 1640 medium supplemented with 10% FBS for 2 h at 37 °C in 5% CO2. Necrotic (i.e., lysed) cancer cells were obtained by multiple freeze‒thaw cycles. Apoptosis and necrosis were confirmed by annexin V-FITC/propidium iodide (BD Biosciences, San Jose, CA, USA) staining followed by flow cytometric analysis on a FACSCalibur system (ACEA Novocyte 3000, Agilent, Santa Clara, CA, USA) [18 (link)]. Supplementary Fig. S1a, b show representative dot plots indicating the percentages of apoptotic and necrotic 344SQ and A549 cells.
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