Bio-Rad EXQuest Spot Cutter - Manual (Page 200)

Analysis Tools
6-9
will fall on the black center line in the graph (slope = 1.00). If the quantities are not
the same, the point will fall above or below the center line.
The regression line generated from the plot is shown in green. This is displayed when
the Regression Line checkbox is selected.
If you select the 2-fold, 3-fold, or 4-fold buttons, parallel red and blue lines will
appear on the graph. All spots between these lines have quantities in the two items
that fall within the selected fold-factor range.
The correlation coefficient for the regression line is displayed on the graph. A
coefficient of 1.00 indicates that the two items are perfectly similar, while a low
coefficient value (e.g., 0.40) indicates that the two are not very similar. The number of
spots that appear in both is also listed on the graph.
If you click a point in the graph, that spot will be highlighted and magnified in the
actual MatchSet.
To print the currently displayed scatter plot, click the Print button in the window.
To print scatter plots comparing every gel in the MatchSet with every other gel, click
the Print All button. This opens the Scatter Plots Report dialog. Enter a title,
researcher, and institution and click Done. This opens the report viewer.
The report viewer allows you the option of printing or reformatting the report. Click
reformat report button to return to the Scatter Plots Report dialog.
6.4 Replicate Groups
Since most experiments are carried out in duplicate, data analysis can be performed
on each gel individually or on sets of duplicate gels grouped together. The Replicate
Groups function allows you to group sets of duplicate gels and determine the average
quantities of their protein spots.
Note: All duplicate gels must be in the same MatchSet before you create a replicate
group.
To make a replicate group, make sure the MatchSet with the duplicates is open and
active, then go to the Analyze menu, open the Replicate Groups submenu, and select
Create Group.