Fig. 3

GO term enrichment analysis of differentially expressed gene categories and gene expression levels with the proportion of positively correlated methylated transcripts. A Through bioinformatics analysis, FC (fold change) was set to more than 2 times that of differentially expressed genes. The upregulated genes are represented by green and the downregulated ones by red; those with no difference are represented by gray. B GO term enrichment analysis revealed a distinct predominance of up/downregulated gene categories in zebrafish brain tissues. GO terms were analyzed with DAVID and further clustered using REVIGO. The ten most significantly enriched categories are shown. C The percentages of methylated genes among all genes (within one expression gearwheel) in zebrafish brain tissues accounted for a progressively larger fraction as the gene expression level increased (the expression level was equally divided into ten bins in a range of 1 ≤ FPKM ≤50). The gray gear indicates the gene expression level, and the green gear indicates the methylation level