scNMT-seq enables joint profiling of chromatin accessibility DNA methylation and transcription in single cells.

Abstract:

:Parallel single-cell sequencing protocols represent powerful methods for investigating regulatory relationships, including epigenome-transcriptome interactions. Here, we report a single-cell method for parallel chromatin accessibility, DNA methylation and transcriptome profiling. scNMT-seq (single-cell nucleosome, methylation and transcription sequencing) uses a GpC methyltransferase to label open chromatin followed by bisulfite and RNA sequencing. We validate scNMT-seq by applying it to differentiating mouse embryonic stem cells, finding links between all three molecular layers and revealing dynamic coupling between epigenomic layers during differentiation.

journal_name

Nat Commun

journal_title

Nature communications

authors

Clark SJ,Argelaguet R,Kapourani CA,Stubbs TM,Lee HJ,Alda-Catalinas C,Krueger F,Sanguinetti G,Kelsey G,Marioni JC,Stegle O,Reik W

doi

10.1038/s41467-018-03149-4

subject

Has Abstract

pub_date

2018-02-22 00:00:00

pages

781

issue

1

issn

2041-1723

pii

10.1038/s41467-018-03149-4

journal_volume

9

pub_type

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