Figure 4: Levels of 5mC and 5hmC at selected regions of the HOXA cluster.
From: Hydroxylation of 5-methylcytosine by TET2 maintains the active state of the mammalian HOXA cluster
Genomic DNA from untreated NT2 cells (cont.) and cells treated for 3, 7, 14 and 21 days with RA was analysed by (h)MeDIP using antibodies against 5mC and 5hmC. Immunoprecipitated DNA was amplified by gene-specific q-PCR. The following regions were analysed: (a) HOXA1 downstream CGI, (b) HOXA1 second exon (covering a potential NANOG/OCT4-binding site37), (c) HOXA1 promoter/first exon, (d) HOXA1 upstream RARE, (e) HOXA2 promoter/first exon, (f) HOXA3 second CGI, (g) HOXA4 second exon, (h) HOXA5-6 intergenic CGI and (i) HOXA6 promoter/first exon. Enrichments were calculated relative to the unmethylated UEB2B control. 5mC values are shown as black bars and 5hmC values as grey bars. Diagrams show the results of at least three independent experiments. s.d.'s are indicated by error bars.
