Bio-Rad Firmware & Software Updates - Manual (Page 133)

Gene Expression Analysis
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Table 41. Right-click menu items.
Data Spreadsheet
The spreadsheet lists the target, normalized expression for control sample and experimental
samples, and whether targets are up- or downregulated compared to the theshold setting.
Click the checkbox adjacent to a target to include or exclude it from the plot. Select chart
options by right-clicking.
Volcano Plot
The volcano plot shows the change in expression (regulation) of a target for an experimental
sample compared to a control and indicates the degree of significance based on
P value.
The plot image shows the following changes in regulation based on the threshold setting:
• Upregulation (red circle). Higher expression
• Downregulation (green circle). Lower expression
• No change (black circle)
Click and drag either vertical threshold line to adjust the regulation threshold value.
Settings
The following can be set:
• Control Sample
• Experimental Sample
• Regulation or P-Value Threshold. Enter or adjust the value using arrows and the
plot threshold lines will be moved appropriately
Right-Click Menu Options
Right-click on the volcano plot to select the items shown in Table 41.
Item Function
Copy Copy the chart to a clipboard
Save Image As... Save the graph in the chart view as an image file. Set the
resolution and dimensions of the image and then select the file
type (PNG, GIF, JPG, TIF, or BMP)
Page Setup... Select a page setup for printing
Print... Print the chart view
Set Scale to Default Set the chart view back to the default settings after it’s been
magnified
Chart Options... Open the Chart Options window to adjust the graph
Symbol Select the symbol to use for data points
Color Scheme Choose Red/Green or Red/Blue for the chart colors