Distribution of genes with differential m<sup>6</sup>A RNA methylation in the hippocampus of HIV Tg rats. FuYu ZormanBarry SumazinPavel Paolo SannaPietro Repunte-CanonigoVez 2019 <p><b>A)</b> A larger number of genes with down-regulation of m<sup>6</sup>A methylation was observed in HIV Tg rats than the number of genes with up-regulated methylation, in particular, 201 genes with significant down-regulated methylation (p-value<0.05) while 172 genes were found with significant up-regulated methylation (p-value<0.05). <u>Inset:</u> Distribution of m<sup>6</sup>A peaks within hippocampal mRNAs of HIV Tg and control rat. Transcript architecture is shown underneath: 5’ untranslated region (UTR); coding sequence (CDS); and 3’ UTR. The density of m<sup>6</sup>A peaks was greater on the distal CDS and 3’UTR and showed the greatest enrichment in the immediate vicinity of the stop codon at the CDS-3’UTR boundary. <b>B) The distribution of</b> log2 fold change (log2FC) of genes with up-regulated and down-regulated methylation <b>C,D)</b> Correlation between the methylation and expression changes for genes with up-regulated and down-regulated methylation (Pearson correlation = 0.67 and 0.58 respectively). Among the 201 genes with down-regulated methylation, the expression of 127 genes are also down-regulated while the rest remain unchanged; Among the 172 genes with up-regulated methylation, the expression of 83 genes are also up-regulated while expression of 89 genes remain unchanged.</p>