Peak-valley-peak pattern of histone modifications delineates active regulatory elements and their directionality – University of Copenhagen

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26 April 2016

Peak-valley-peak pattern of histone modifications delineates active regulatory elements and their directionality

Publication

In a new paper, published in Nucleic Acids Research, April 19, 2016, Professor Bo Porse and his group have resolved a distinct epigenetic profile of active regulatory elements.

Huge diversity of cell types within a multicellular organism is orchestrated by regulatory elements like enhancers and promoters. Although important, accurate prediction of active regulatory elements is challenging mainly due to our incomplete understanding of different characteristics that define their active state.

Prof. Bo Porse

The team shows that a single histone modification (H3K4me1/me3) profile in the form of peak-valley-peak (PVP) pattern distinctively characterizes the active state of regulatory elements. 

Requirement of only a single histone mark confers huge advantage to the PVP-based approach over previously available approaches that require data originating from a multitude of diverse sources for the accurate detection of active regulatory elements.

Post doc Sachin Pundhir

The team also unravelled that different forms of the PVP pattern can be used to sub-divide active regulatory elements into functionally different classes. The PVP-based approach to predict active regulatory elements is freely available as a computational method on http://servers.binf.ku.dk/pare.

Pundhir S, Bagger FO, Lauridsen FB, Rapin N, Porse BT. (2016) Peak-valley-peak pattern of histone modifications delineates active regulatory elements and their directionality. Nucleic Acids Res., doi: 10.1093/nar/gkw250 (epub ahead of print: April 19, 2016)