Recently, additional epigenomic information about histone modification maps has been integrated into other approaches, and this significantly outperforms previous strategies [ 17- 19].
To date, most chromatin state maps have provided static pictures of histone modifications.
Related to this finding, recent chromatin modification mapping studies have revealed that histone H3 Lys4 mono- and dimethylation (H3K4me1/2) at enhancers is associated with transcriptionally active genes [ 57, 83].
As a result, the team ran into problems because the scenario and the maps had to be reworked constantly to make all the modifications match.
Rice-Map have integrated epigenetic modification annotations derived from high-throughput profiling data in shoots of four-leaf stage seedlings for both japonica and indica genomes, including both DNA methylation and histone modification data (H3K4me3, H3K9ac and H3K27me3) [ 12].
Thus the establishment of methylation profiles, histone modification maps, and miRNA expression profiles has become the aim of many investigators, so as to be able to propose new more sensitive and specific alternatives for CC screening.
Therefore, nucleosome maps by MNase-seq or ChIP-seq have higher or equal resolution compared to histone modification maps.
Computational methods have been developed to reveal histone code hidden in global histone modification maps.
Nucleosome mapping has been performed according to Rando (2010) with minor modifications.
In human CD4+ T cells, 39 histone modification types have been mapped and several histone mark combinations showed correlation with enhancers, yet no single mark is associated with more than 40% of enhancers [7].
