User Guide

Pairwise Analysis
Set-Up (continued)
8. Select a normalization method from
the Normalization pull-down menu.
Options are All Mean, All Median or
None.
9. Select a method for determining
reliability and consistency between
replicates of each gene from the
Statistics pull-down menu. Options
include t-test (two tailed, unpaired
Student T), Welch’s t-test,
Wilcoxon (non-paramteric) or none.
10. Select Threshold value from the
pull-down menu. This number sets
the threshold for display of up or
down regulation (e.g. setting to 1.5
would select only genes that are
differentially expressed by at least a
factor of 1.5 in one group compared
to the other).
11. You can select a Quality cutoff
value for your data. This is optional
and the value is calculated
differently for different array types.
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