Fig. 2

Epigenome of mini-INTACT purified dopaminergic neurons measured by ChIP-seq and RNA-seq. a–f Genome-wide profiles of the levels for the six epigenetic marks shown as ngs.plot displays. Vertical axes indicate genome-wide average of read counts per million reads. a–c Activating marks were concentrated in the promoter and immediately downstream of the TSS. d H3K36me3, a mark associated with transcriptional elongation, was enriched in the gene body and skewed towards the TES. e, f Two repressive marks were depleted from the TSS and TES, concentrated in the gene body, and enriched upstream of the promoter region. g Epigenetic and transcriptional enrichment profiles surrounding the Ddc gene. Representative RNA-seq panels show that Ddc is more strongly expressed in GH (blue) than in SH (red) males. The distribution of epigenetic marks shown is representative of the SH dataset. The four activating marks (green panels) were high in this strongly expressed gene, while the two repressive marks (red) showed low levels. An example of single “input” DNA track, which is used as a control for mark levels, is shown in the final panel