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Figure 2 | BMC Bioinformatics

Figure 2

From: Dissecting complex transcriptional responses using pathway-level scores based on prior information

Figure 2

Scoring GO categories: Fisher's exact test versus two-sample t-test. We analyzed gene expression data for the response to the ergosterol biosynthesis inhibitor Lovastatin as measured by Hughes et al. [27]. The two-sample t-test reveals that the mean expression level of genes in the GO category "ergosterol biosynthesis" is significantly higher than expected (dotted line; t = 7.4; P = 1.1ยท10-13). Fisher's exact test can be used to score over-representation of the same GO category in the set of most induced genes. However, this requires one to first define a threshold for the expression fold-change of individual genes. The solid line shows how the P-value from Fisher's exact test depends on this threshold.

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