Fig. 3

Molecular function gene ontology (mfGO) and co-citation enrichments. a Molecular function GO enrichment. From left to right: semantic transcript name, enriched mfGO terms (the size of the square relates to the P-values, see legend), barplot of log2 transformed DE of all significant transcripts. The position of the transcript names are aligned with the corresponding bars on the barplot, to indicate their rank among DE genes. Only transcript names linked to enriched mfGO terms are denoted. Error bars denote standard deviations. Asterisks show Entrez gene IDs for which no semantic name is available. b CoCiter counts for given terms and Entrez IDs from DE genes at all time points, divided by the number of included genes (citations per gene). Asterisks denote significant enrichment of combined terms (P < 0.005). c Enrichment analysis of combined terms from (b, 48 hpf) for significantly expressed genes in this study (top) and 10 collections of 153 randomly picked identifiers from the input (random background). The dashed line marks P = 0.01