PT  - JOURNAL ARTICLE
AU  - Isac Lee
AU  - Roham Razaghi
AU  - Timothy Gilpatrick
AU  - Michael Molnar
AU  - Norah Sadowski
AU  - Jared T. Simpson
AU  - Fritz J. Sedlazeck
AU  - Winston Timp
TI  - Simultaneous profiling of chromatin accessibility and methylation on human cell lines with nanopore sequencing
AID  - 10.1101/504993
DP  - 2019 Jan 01
TA  - bioRxiv
PG  - 504993
4099  - http://biorxiv.org/content/early/2019/02/02/504993.short
4100  - http://biorxiv.org/content/early/2019/02/02/504993.full
AB  - Understanding how the genome and the epigenome work together to control gene transcription has applications in our understanding of diseases such as human cancer. In this study, we combine the ability of NOMe-seq to simultaneously evaluate CpG methylation and chromatin accessibility, with long-read nanopore sequencing technology, a method we call nanoNOMe. We generated >60Gb whole-genome nanopore sequencing data for each of four human cell lines (GM12878, MCF-10A, MCF-7, MDA-MB-231) including repetitive regions inaccessible by short read sequencing. Using the long reads, we find that we can observe phased methylation and chromatin accessibility, large scale pattern changes, and genetic changes such as structural variations from a single assay.