Regions of high methylation in placentas cover gene bodies.
(A) Heatmap of average methylation in the gene bodies (introns and exons, excluding CpG islands and promoters) of orthologous genes. Only the top few GO biological processes with Benjamini p-values below 1.0E-3 are shown. For a complete list see S3 Table. Branches A and B were combined because they contain similar GO terms. (B) Comparison of percent methylation between human placenta (red curve) and rhesus placenta (purple curve). Rhesus methylation data was lifted over to the human genome. Vertical purple lines show large chromosomal breaks in synteny between the two species. The fourth ring in shows regions of higher (blue) and lower (red) methylation in human placenta compared to rhesus. The fourth circle in shows the locations of human genes in black. (C) Spinograms showing the probability that a 5 kb window is in a gene given that window's average percent methylation. Bars are color-coded by percent methylation and bar widths show the percentage of windows with that methylation level. Bars furthest from the 0.5 blue line marker show the most information about gene location.