Skip to main content
Fig. 5 | Genome Biology

Fig. 5

From: Gene-level differential analysis at transcript-level resolution

Fig. 5

GO analysis based on p value aggregation. a Four aggregation methods (“Lancaster TCC,” “Lancaster Tx,” “Sidak Tx,” and “Gene”) were performed with sleuth to obtain gene-level differential expression analysis on response to dexamethasone treatment. The significant genes (FDR < 0.05) from each differential expression analysis were tested for GO enrichment (Fisher’s exact test) and Bonferroni-corrected. GO terms containing the word “immune,” for which at least one differential expression analysis provided a significant enrichment (FWER < 0.05), are shown with corresponding FWERs. Aggregation methods (“Lancaster TCC,” “Lancaster Tx,” and “Sidak Tx”) are better at detecting “immune” enrichment than p values derived from standard gene-level analysis (“Gene”). b TCC p values aggregated by GO term (“Perturbation Test”) reveal complementary information to classical GO enrichment (“Enrichment Test”)

Back to article page