Stability of histone modifications across mammalian genomes: implications for 'epigenetic' marking.

The combination of chromatin immunoprecipitation (ChIP) with microarray analysis (ChIP-chip) or high-throughput sequencing (ChIP-seq and ChIP-SAGE) has provided maps of a wide variety of site-specific histone modifications across mammalian genomes in various cell types. Although distinct genomic regions and functional elements have been strongly associated with specific histone modifications, an overwhelming number of combinatorial patterns have also been observed across the genome. While peaks of enrichment in ChIP-chip and ChIP-seq data may suggest stable and predictive 'landmarks' across the genomic landscape, studies from transcribed genes indicate a more dynamic model of how these data may be interpreted. In light of such studies, which show highly dynamic methylation, acetylation and phosphorylation of histone H3 during gene transcription, we consider the extent to which genome-wide maps of chromatin state could be interpreted as 'snapshots' of heterogeneous profiles deriving from dynamic modification processes. Rather than acting as static 'epigenetic' landmarks, histone modifications may function as dynamic and transient operational marks supporting specific steps in diverse processes throughout the mammalian genome.

Lee BM ，Mahadevan LC 《-》

ChromaSig: a probabilistic approach to finding common chromatin signatures in the human genome.

Hon G ，Ren B ，Wang W 《-》

Genome-wide analysis of histone modifications by ChIP-on-chip.

Huebert DJ ，Kamal M ，O'Donovan A ，Bernstein BE ... -  《METHODS》

Genome-wide epigenetic analysis of human pluripotent stem cells by ChIP and ChIP-Seq.

Hitchler MJ ，Rice JC 《-》

Aberrant de novo methylation of the p16INK4A CpG island is initiated post gene silencing in association with chromatin remodelling and mimics nucleosome positioning.

Hinshelwood RA ，Melki JR ，Huschtscha LI ，Paul C ，Song JZ ，Stirzaker C ，Reddel RR ，Clark SJ ... -  《-》