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Table 3 A comparison of the contingency table for Concordance Fisher’s Exact (above) and Fisher’s Exact Overrepresentation (below)

From: A comparison of curated gene sets versus transcriptomics-derived gene signatures for detecting pathway activation in immune cells

 

Genes matched in regulation direction

Genes not matched in regulation direction

Total

In signature

x

mx

m

Not in signature

kx

n−(kx)

n

Total

k

m+nk

m+n

 

Differentially expressed genes

Not differentially expressed genes

Total

In signature

x

mx

m

Not in signature

kx

n−(kx)

n

Total

k

m+nk

m+n