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Summit version 4

Manufactured by Agilent Technologies
Sourced in Denmark, United States

Summit version 4.3 software is a data analysis and visualization tool developed by Agilent Technologies. It provides core functions for processing and analyzing data from various analytical instruments.

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7 protocols using summit version 4

1

Apoptosis Quantification in Mouse Fetal HpSCs

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After 5 days of culture, mouse fetal HpSCs were harvested with 0.05% trypsin (Sigma). Cells were washed with phosphate-buffered saline and cellular apoptosis was detected by Annexin-V FLUOS staining kit (Roche Diagnostics, Indianapolis, IN, USA) according to the manufacturer’s instructions. Samples were stained with 10 μg/mL propidium iodide in the dark at 4°C for 10 minutes. Annexin V-positive cells were analyzed with MoFlo and the Summit version 4.0 software (both DakoCytomation).
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2

Isolation of Mouse Hepatic Stem Cells

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Mouse hepatic stem cells were sorted from the liver of embryonic day 13.5 C57BL/6 fetal mice (n = 4), as we described previously [31 (link)]. In brief, liver cells were stained with the following antibodies: biotinylated anti-Ter-119 and anti-CD45, anti-c-Kit-APC, anti-CD49f-PE, and anti-CD29-FITC. Streptavidin-labeled allophycocyanin-Cy7 was used to detect biotinylated antibodies. All the above antibodies were purchased from BD Pharmingen, San Diego, CA, USA. For gating, the CD45Ter119 c-Kit cell population was firstly gated out, and then the CD49f+/lowCD29+ subpopulation was set as the sorting gate. Analysis and sorting were performed using MoFlo with Summit version 4.0 software (DakoCytomation, Denmark).
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3

Isolation of Fetal Mouse Liver Cells

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Suspended liver cells were obtained from embryonic day 13.5 C57BL/6 fetal mice as previously described [33 (link)]. In brief, dissociated liver cells were stained with biotinylated anti-CD45 and Ter-119 monoclonal antibodies, anti-CD29-FITC antibody, anti-CD49f-PE antibody, and anti-c-Kit-APC antibody. Cells positive for the biotinylated antibodies were detected with streptavidin-labeled allophycocyanin-Cy7 (all monoclonal antibodies were purchased from BD PharMingen, San Diego, CA, USA). Labeled cells were then analyzed and separated using MoFlo (DakoCytomation, Denmark) and Summit version 4.0 software (DakoCytomation, Denmark).
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4

Flow Cytometric Analysis of Cell Viability

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The median fluorescence intensities (MFI) from 104 viable cells, gated in accordance with forward and side scatter parameters representative of cell size and granularity, were acquired using the FL1-H filter (for Rho 123 and CF) or the FL3-H filter (for DNR) on a BD FACS Calibur flow cytometer (BD Biosciences, San Jose, CA, USA) and represented on histograms. All post-analyses were performed on Summit version 4.3 software (Dako Colorado, Inc., Fort Collins, CO, USA).
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5

BrdU Labeling for Cell Cycle Analysis

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Cells to be analyzed by flow cytometry were labeled with 10 μM BrdU for 1 h prior to trypsinization and fixation in 70% ethanol. Nuclei were stained with anti-BrdU antibody (BD Biosciences) followed by Alexa fluor 488-labeled secondary antibody (Jackson ImmunoResearch Laboratories) and were counterstained with propidium iodide. Flow cytometry analysis was performed using a Cyan FACScan (DakoCytomation) and Summit version 4.3 software (DakoCytomation).
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6

GFP Expression Assessment in Bone Marrow

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GFP expression was assessed in bone marrow samples from AAV-injected mice by flow cytometry. Bone marrow cells were flushed from the bone with a 25-gauge syringe and resuspended in 0.1% bovine serum albumin in PBS. Different cell samples were stained with anti-CD3-allophycocyanin (APC), B220-APC, or GR/Mac1-APC (BD Pharmingen, Palo Alto, CA), and GFP expression in each lineage was assessed by flow cytometry (CyAn, ADP Analyzer; Beckman Coulter Singapore Pte., Ltd.). A minimum of 2 × 104 viable cells was acquired. Off-line analysis was performed with Summit, version 4.3, software (Dako, Glostrup, Denmark). The presence of transgene-expressing cells was determined through their GFP expression.
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7

Apoptosis Induction Kinetics Assay

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Cells were processed according to the Cell Signaling Technology protocol. TF-1 cells were treated for 24 h with 625 nM ABT-737 before addition of 1.0 μM 5-Aza and fixed at 72 h total. HL-60 was dosed with 500 nM ABT-737 simultaneously with 1.0 μM 5-Aza, before fixation at 8, 24 and 48 h. Cells were incubated for 1 h with cleaved caspase-3 (Asp175)-Alexa Fluor 488 antibody conjugate (Cell Signaling Technology, Danvers, MA, USA) at 1:50 dilution. Fluorescence intensity was measured on a CyAn flow cytometer (Beckman Coulter, Pasadena, CA, USA) and data analyzed with Summit Version 4.3 software (DAKO, Carpinteria, CA, USA).
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