NOMe-Seq

Nucleosome Occupancy Methylome-Sequencing

NOMe-Seq is a single-molecule, high-resolution nucleosome positioning assay (Han et al., 2011). This method is based on the ability of the GpC methyltransferase M.CviPI to methylate GpC sites that are not bound by nucleosomes, to create a digital footprint of nucleosome positioning. M.CviPI can map nucleosome positions at CpG-poor promoters, irrespective of their endogenous methylation status.

In this method, native chromatin is treated with M.CviPI, following which the DNA is treated with sodium bisulfite and subjected to WGBS. From these data, CpG methylation patterns as well as nucleosome-free regions (GpC methylation) can be identified (Wallner et al., 2016)

Advantages:

  • High resolution

Disadvantages:


Reagents:

Illumina Library prep and Array Kit Selector



Reviews:

Shull A. Y., Noonepalle S. K., Lee E. J., Choi J. H. and Shi H. Sequencing the cancer methylome. Methods Mol Biol. 2015;1238:627-651



References:

Wallner S., Schroder C., Leitao E., Berulava T., Haak C., et al. Epigenetic dynamics of monocyte-to-macrophage differentiation. Epigenetics Chromatin. 2016;9:33

Lay F. D., Liu Y., Kelly T. K., et al. The role of DNA methylation in directing the functional organization of the cancer epigenome. Genome Res. 2015;25:467-477

Statham A. L., Taberlay P. C., Kelly T. K., Jones P. A. and Clark S. J. Genome-wide nucleosome occupancy and DNA methylation profiling of four human cell lines. Genom Data. 2015;3:94-96