Experiment settings window – Bio-Rad Firmware & Software Updates User Manual
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Gene Expression Analysis
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Experiment Settings Window
Open the Experiment Settings window by clicking the Experiment Settings button in the Bar
Chart tab. In this window, view or change the list of Targets and Samples, select reference
genes, select control samples, or set the Gene Expression Analysis sample group to be
analyzed if Biological Set Names have been added to the wells (Figure 83).
Figure 83. Experiment Settings window with Targets tab selected.
To adjust the lists in these tabs, use the following functions:
•
Add a target or sample name by typing a name in the New box and clicking Add
•
Remove a target or sample name from the list by clicking the Remove Name box for
that row and then clicking the Remove checked item(s) button
•
Select the target as a reference for gene expression data analysis by clicking the box
in the Reference column next to the Name for that target
•
Select the sample as a control sample for gene expression data analysis by clicking
the box in the Control column next to the name for that sample
NOTE: Only one control can be selected per well group. If more than one control is
selected, the bar chart data will be plotted with “None” as the control sample. To
change this setting for the bar chart, select a control sample from the drop-down
menu in the settings pane.
•
Select the sample type(s) that should be excluded from Gene Expression Analysis
calculations.
B
IOLOGICAL
S
ET
A
NALYSIS
O
PTIONS
Loading Biological Set Name in the wells enables samples to be analyzed in one of four
configurations. To access these options from the Bar Chart tab, click the Experiments
Settings button and select an analysis configuration from the drop-down list of Biological Set
Analysis Options.
•
Target vs. Sample. Only the well sample name is used in the gene expression
calculations
•
Target vs. Biological Set. Only the biological set name is used in the calculations
•
Target vs. Sample_Biological Set. The sample name and biological set name are
combined to make a single name used in the calculations
•
Target vs. Biological Set_Sample. The biological set name and sample name are
combined to make a single name used in the calculations