User Guide

Pairwise Analysis
Results
1. After submitting pairwise
comparison analysis parameters, a
list of differentially expressed genes
is returned. The genes are ordered
by ratio, listing those genes which
are most differentially expressed at
the top of the list.
2. The colored arrow indicates whether
expression is higher (red up arrow)
or lower (green or blue down arrow;
color dependent on Preferences) in
Group 2 compared to Group 1.
3. The total number of genes (results
found) is indicated next to the
Search button. The default gene list
display is twenty genes per page; to
show more, increase the number in
the Show pull-down menu and
select Search.
Sort by p-value
If a statistical test was included in
the pairwise comparison, the list can
be sorted by p-value from the Sort
By pull-down menu and then
selecting the Search button. Genes
will be sorted by ascending p-value.
If multiple corrections, have been
applied, that p-value is used.
p Cutoff
The user can view results that are
less than or equal to the selected p
cutoff. A statistical test (t-test,
Welch’s t-test or Wilcoxon) must
be performed in order to use the p
Cutoff.
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