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Table 4 2 × 2 Table for testing whether pathway j was over-represented in the identified genes (To test H0: the number of genes in pathway p is independent of the number of identified genes relevant to CAN. Vs. H1: the number of genes in pathway p is over-represented in the identified genes relevant to CAN, since all the marginal values are given, Fisher's exact test is used. The p-value from the test is P ( G I D , p ≥ g I D , p ) = ∑ t ≥ g I D , p ( G I D t ) ( G 0 − G I D G 0 , p − t ) ( G 0 G 0 , p ) MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacPC6xNi=xH8viVGI8Gi=hEeeu0xXdbba9frFj0xb9qqpG0dXdb9aspeI8k8fiI+fsY=rqGqVepae9pg0db9vqaiVgFr0xfr=xfr=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@66AA@ , where gID, pdenotes the observed value of GID, p)

From: A non-parametric meta-analysis approach for combining independent microarray datasets: application using two microarray datasets pertaining to chronic allograft nephropathy

 

No. of Genes in Pathway p

No. of Genes Not in Pathway p

Total

No. of Identified Genes Relevant to CAN

G ID, p

G ID - GID, p

G ID

No. of Genes Irrelevant to CAN

G0, p- GID, p

G0 - G0, p- (G ID - GID, p)

G0 - G ID

Total

G 0, p

G0 - G0, p

G 0