Chromatin signatures: DNaseI hypersensitivity and histone modification. Average chromatin accessibility profiles and various histone modifications surrounding the TSS for coding genes, transcribed pseudogenes, and non-transcribed pseudogenes. The coding gene histone modification profiles around the TSS follow known patterns - for example, enrichment of H3K4me1 around 1 kb upstream of the TSS and the H3K4me3 peaks close to the TSS . Transcribed pseudogenes also show stronger H3K4 signals than non-transcribed pseudogenes. H3K27me3, a marker commonly associated with gene repression , showed depletion around the TSS for the coding gene and a distinctive peak in the same region for the pseudogenes. H3K36me3 also shows a similar pattern as H3K27me3 at TSSs, which may relate to nucleosome depletion.
Pei et al. Genome Biology 2012 13:R51 doi:10.1186/gb-2012-13-9-r51