Shedding light on the long-range interaction of the human epigenome using ultra-long nanopore sequencing

Roham Razaghi

Roham Razaghi, Johns Hopkins University, USA

Abstract

Gene regulation in mammalian cells is controlled in part by DNA methylation, but it’s a complex interplay between methylation at the gene promoter, gene body, and distal enhancers. To better understand the long-range epigenetic interactions, we generated ultra-long nanopore sequencing data on a colorectal cancer cell line. We found that a PromethION Flow cell routinely generated 100Gb+ sequencing data with N50 of 80kb+. Leveraging these ultra-long molecules, we examined phased long-range enhancer-promoter interactions. With this data, we will investigate how 3D architecture of the genome and DNA methylation facilitates and constraints enhancer-promoter interactions.

Bio

Roham Razaghi is a fourth-year Ph.D. candidate in the department of Biomedical Engineering at Johns Hopkins University. He earned his undergraduate degree in Bioengineering from the University of California, San Diego. His current projects involve developing novel technologies for the measurement of endogenous and exogenous modifications in nucleic acids.