Statistical significance of the intersection of three gene lists

Question

[roy.granit]

Hi All,

I have 3 independent lists of genes, and I would like to assess the statistical significance of the intersection of the lists. For two groups I have used hypergeometric test, but I'm uncertain what should be done here.

Any ideas?

Thanks!

[Kevin Blighe]

I think that this effectively becomes a 3 x 3 contingency table, no? If you agree, then I think that Fisher's Test can be used.

[roy.granit]

I wish to know if the overlap of ALL three lists together is significant, so I don't believe that contingency table would fit this use case.