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Novoexpress 1

Manufactured by Agilent Technologies
Sourced in United States, China

NovoExpress 1.2.5 is a software application developed by Agilent Technologies for data acquisition and analysis in flow cytometry. The software enables the collection, processing, and visualization of flow cytometry data.

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59 protocols using novoexpress 1

1

Cell Cycle and Apoptosis Analysis

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Cells in 6-well plates were collected using tryptase 48 h following transfection. Cells were washed twice with PBS, followed by resuspension in 250 µl binding buffer (BD Pharmingen; BD Biosciences). Cells were fixed in 1% paraformaldehyde at 4°C overnight and then stained with 5 mg/ml propidium iodide (PI) alone or together with Annexin V/fluorescein isothiocyanate (BD Pharmingen; BD Biosciences) at room temperature for 15 min for cell cycle or apoptosis analysis, respectively. Incubation was performed in the dark for 15 min. Flow cytometry was performed using flow cytometer and analyzed using NovoExpress 1.2.5 software (ACEA Biosciences, Inc.; Agilent Technologies, Inc., Santa Clara, CA, USA). The apoptotic rate was calculated by adding the percentage of early apoptotic (Annexin V-positive, PI-negative) and late apoptotic cells (Annexin V-positive, PI-positive).
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2

Hypoxia-Induced Cell Size and ROS Evaluation

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The change in cell size was evaluated using a NovoCyte flow cytometer (ACEA Biosciences, Hangzhou, China). Forward scatter (FSC) is proportional to the size of the cell. Larger cells have stronger FSC signals. Side scatter (SSC) is related to cell granularity and structural complexity. Cells were treated with CoCl2 or 2 mM NAC for 24 hours and then digested and centrifuged for 3 minutes at 1000 rpm. After resuspension in DMEM, 3 × 104 cells per sample were tested, and cell debris was excluded by gating. The values of forward scatter height (FSC-H) and side scatter height (SSC-H) were measured and analyzed with NovoExpress 1.2.5 software (ACEA Biosciences, Hangzhou, China).
A cellular ROS kit was used to evaluate ROS levels induced by hypoxia. Briefly, cells were handled following the manufacturer's instructions. The green fluorescence of DCF was detected using the FITC channel at 488 nm excitation and 530 nm emission. For the apoptosis assay, a FITC Annexin V Apoptosis Kit (BD, NJ, USA) was used. Briefly, the cells were handled following the manufacturer's instructions. Green (Annexin) and red (PI) fluorescence was detected using the FITC and PE channels, respectively. The data were analyzed with NovoExpress 1.2.5 software.
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3

Cell Cycle and Apoptosis Analysis

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Cell cycle analysis kit (Beyotime, Shanghai, China) was adopted to check cell cycle distribution of samples through Propidium Iodide (PI) staining. Cells were collected by centrifugation at 310 × g for 5 min followed by fixation with ice-cold 70% ethanol for 2 h at 4°C. The cells were resuspended with 500 μl staining buffer solution (Beyotime) and then incubated with 25 μl PI (Beyotime) and 10 μl RNase A solution (Beyotime) in dark for 30 min at 37°C. Annexin V-FITC apoptosis detection kit (Beyotime) was utilized to check cell apoptosis of samples by double-staining of Annexin V-FITC and PI. Cells were collected by centrifugation at 1000 × g for 5 min followed by resuspension with 195 µl Annexin V-FITC binding solution (Beyotime). Then, the cells were incubated with 5 μl AnnexinV-FITC and 10 μl PI at room temperature for 15 min. Finally, all cell samples were detected using NovoCyte Flow Cytometers (Acea Biosciences, San Diego, CA, USA) and analyzed using the NovoExpress 1.2.5 software (ACEA Bioscience). The apoptosis rate of cells was calculated as follows: apoptosis rate = (early apoptosis (Annexin V+ and PI) cells + late apoptosis (Annexin V+ and PI+) cells)/total cells × 100%.
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4

Apoptosis Analysis of Terpenoid Compounds

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Apoptosis detection was performed by using an Annexin V-FITC and PI apoptosis kit (eBioscience™, San Diego, CA, US). HL60 cells were plated at a 3 × 105 cells/mL density onto a six well plate. After 24 h of incubation, the cells were treated with LEO at 0.2 mg/mL and with pure compounds at 77.1 µg/mL for terpinen-4-ol, linalool, and 1,8-cienole, and at 98.1 µg/mL for linalyl acetate. Cells grown in media containing an equivalent amount of DMSO served as the solvent control. After 24 h, the cells were stained with an Annexin V-FITC conjugate and propidium iodide, and the percentage of apoptotic, necrotic, and living cells was determined according to the protocol provided by the Annexin V-FITC and PI apoptosis kit. The cells’ emitted fluorescence was analyzed by flow cytometry (NovoCyte, ACEA Biosciences Inc, San Diego, CA, US) through the NovoExpress 1.3.0 software (ACEA Biosciences Inc, San Diego, CA, US), acquiring 1 × 104 events per sample using the population plot “dot plot”, where each point corresponds to a single event with a specific fluorescence signal in reference to the axes; Annexin V-FITC green fluorescence in abscissa vs. PE red fluorescence in ordinate. The experiments were repeated three times.
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5

Cell Cycle Analysis of HeLa Cells

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HeLa cells (3×105) were incubated with 2 mM thymidine for 17 h at 37°C, cultured in fresh medium for 10 h, and then treated with thymidine again for a further 13 h. The cells were collected at different times (S phase, 4.5 h; G2/M phase 8 h; G0/G1 phase, 14 h) after release for cell cycle analysis and western blotting, as aforementioned. The cells were washed with prechilled PBS, treated with 100 µg/ml RNase in PBS and stained with 10 µg/ml propidium iodide for 10 min at room temperature. The cell cycle was analyzed using a flow cytometer (NovoCyte; ACEA Biosciences, Inc.) and the NovoExpress 1.3.0 software (ACEA Biosciences, Inc.).
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6

Apoptosis Detection in MCF-7 Cells

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Annexin V-FITC and PI apoptosis kit were used to detect apoptosis (eBioscience™, San Diego, CA, USA). On a six well plate, Mcf cells were plated at a density of 600,000 cells/ml. The cells were treated with compound 8 at 10 mg/ml after 24 h of incubation. The solvent control consisted of cells developed in medium containing an equivalent volume of DMSO. In accordance with the instructions supplied by the Annexin V-FITC and PI apoptosis kit, the cells were stained with an Annexin V-FITC conjugate and propidium iodide (PI) after 24 h. The percentage of apoptotic, necrotic, and alive cells was then calculated. By using a flow cytometer (NovoCyte, ACEA Biosciences Inc, San Diego, CA, US) and the NovoExpress 1.3.0 software (ACEA Biosciences Inc, San Diego, CA, US), the cells' released fluorescence was examined. Each point on the population plot ("dot plot") corresponds to a single event with a particular fluorescence signal in relation to the axes: Annexin V-FITC green fluorescence.
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7

Apoptosis Quantification by Flow Cytometry

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Apoptosis detection was performed by using Annexin V-FITC and PI apoptosis kit (eBioscienceTM, San Diego, CA, USA). Mcf cells were plated at a 600,000 cells/mL density onto a six well plate. After 24 h of incubation, the cells were treated with compound 15 at 10 Mg/mL. Cells grown in media containing an equivalent amount of DMSO served as the solvent control. After 24 h, the cells were stained with an Annexin V-FITC conjugate and propidium iodide (PI), and the percentage of apoptotic, necrotic, and living cells was determined according to the protocol provided by the Annexin V-FITC and PI apoptosis kit. The cells’ emitted fluorescence was analyzed by flow cytometry (NovoCyte, ACEA Biosciences Inc, San Diego, CA, US) through the NovoExpress 1.3.0 software (ACEA Biosciences Inc, San Diego, CA, US), acquiring 1 × 104 events per sample using the population plot “dot plot”, where each point corresponds to a single event with a specific fluorescence signal in reference to the axes; Annexin V-FITC green fluorescence in abscissa vs. PE red fluorescence in ordinate.
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8

Apoptosis Quantification by Flow Cytometry

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Apoptosis detection was performed by using Annexin V-FITC and PI apoptosis kit (eBioscienceTM, San Diego, CA, USA). Mcf cells were plated at a 600,000 cells/mL density onto a six well plate. After 24 h of incubation, the cells were treated with compound 15 at 10 Mg/mL. Cells grown in media containing an equivalent amount of DMSO served as the solvent control. After 24 h, the cells were stained with an Annexin V-FITC conjugate and propidium iodide (PI), and the percentage of apoptotic, necrotic, and living cells was determined according to the protocol provided by the Annexin V-FITC and PI apoptosis kit. The cells’ emitted fluorescence was analyzed by flow cytometry (NovoCyte, ACEA Biosciences Inc, San Diego, CA, US) through the NovoExpress 1.3.0 software (ACEA Biosciences Inc, San Diego, CA, US), acquiring 1 × 104 events per sample using the population plot “dot plot”, where each point corresponds to a single event with a specific fluorescence signal in reference to the axes; Annexin V-FITC green fluorescence in abscissa vs. PE red fluorescence in ordinate.
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9

Cellular Uptake of Cy5.5-labeled isRNA

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One day before the experiment, B16 or RLS40 cells in the exponential phase of growth were seeded on 48-well plates at a density of 4.5 × 104 cells/well. Following a 24-h incubation, Cy5.5-labeled isRNA or its complexes with liposomes were added to the cells. Four hours after Cy5.5-isRNA addition, B16 cells were detached with TrypLE (Thermo Fisher Scientific, Waltham, MA, USA), and RLS40 cells were collected via centrifugation and fixed with 2% formaldehyde in phosphate-buffered saline (PBS). Cells were analyzed using a NovoCyte flow cytometer (ACEA Biosciences, San Diego, CA, USA); 8000 cells from each sample were analyzed. NovoExpress 1.1.0 (ACEA Biosciences, San Diego, CA, USA) was used for data analysis.
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10

Annexin V-FITC/PI Apoptosis Assay

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Cell apoptosis rates were determined using the Annexin V- FITC/propidium iodide (PI) apoptosis kit (Dingguo Changsheng Biotechnology Co., Ltd.) according to the manufacturer's protocol. Each cell sample of 300 µl with 1×106 cells was incubated with 5 µl Annexin V-FITC for 15 min at 37°C, followed by 5 µl PI for 15 min. Cellular fluorescence was measured using a flow cytometer (ACEA NovoCyte; NovoExpress 1.1.0; ACEA Biosciences, Inc.). The apoptosis rate was calculated by adding the early apoptosis (Annexin V+/PI, Q4) and late apoptosis (Annexin V+/PI+, Q2). The preliminary results revealed no difference following RAPA and 3-MA treatments in normal cells (data not shown), and the apoptosis rates in groups C, H, HB, HRB and HMB were evaluated.
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