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Published online 2012 January 20. doi: 10.1093/nar/gks012

Table 1.

The hypergeometric test is based upon a 2 × 2 contingency table of gene pairs

InteractionNo interaction
In gene setab
Not in gene setcd

Each element in the contingency table indicates the number of gene pairs corresponding to the associated row and column. For instance, there are a gene pairs in the gene set for which an interaction was observed, and d gene pairs not in the gene set for which no interaction was observed.