Figure 3: Distribution of 5mC and 5hmC within the HOXA cluster.
From: Hydroxylation of 5-methylcytosine by TET2 maintains the active state of the mammalian HOXA cluster
(a) hMeDIP-seq (5hmC) and MeDIP-seq (5mC) profiles of the HOXA cluster in untreated NT2 cells (cont.) and cells treated for 14 days with RA (14d). Enrichments are indicated as increase in the sequence coverage. HOXA transcription units on chromosome 7 are indicated on top in dark blue, below (h)MeDIP-amplicons are indicated as black lines. Potential RAREs9 are shown as light blue lines below the profiles, CGIs as green squares and sites interrogated by the Infinium450 K BeadChip as black bars. At the bottom, the difference of methylation values of the Infinium analysis (ΔAVB) between untreated and NT2 cells treated for 14 days with RA for each Infinium site is indicated. Genomic features are viewed as custom tracks in the UCSC genome browser55 (b) Detailed hMeDIP-seq (5hmC) and MeDIP-seq (5mC) profiles at the HOXA1 locus in untreated NT2 cells (cont.) and cells treated for 14 days with RA (14d). The HOXA1 RARE (blue bar), CGIs (green squares), (h)MeDIP-amplicons (black squares), Infinium sites (black lines) and the 454 bisulphite sequencing amplicon (purple square) are indicated below the profiles. Genomic features are viewed as custom tracks in the UCSC genome browser55.
