GSE115454
Epigenetic optical mapping of 5-hydroxymethylcytosine in nanochannel arrays
We present a long-read, single-molecule mapping technology that generates hybrid genetic/epigenetic profiles of native chromosomal DNA. The genome-wide distribution of 5-hmC in human peripheral blood cells correlates well with 5-hmC DNA immunoprecipitation (hMeDIP) sequencing. However, the long single-molecule read-length of 100 kbp-1 Mbp produces 5-hmC profiles across variable genomic regions that failed to show up in the sequencing data. In addition, optical 5-hmC mapping shows a strong correlation between the 5-hmC density in gene bodies and the corresponding level of gene expression. Overall design: Optical mapping of 5-hmC and 5-hmC DNA immunoprecipitation of human PBMCs. This series contains only the hMeDIP samples. Optical mapping data (.cmap and .xmap files) are available at ftp://ftp.ncbi.nlm.nih.gov/pub/supplementary_data/bionanomaps.csv in files: SUPPF_0000002688 and SUPPF_0000002687