scNMT-seq enables joint profiling of chromatin accessibility DNA methylation and transcription in single cells.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 29472610.
- Also identified by DOI 10.1038/s41467-018-03149-4 and PMC identifier 5823944.
- Licence recorded as CC BY.
- The licence permits redistribution, so the abstract is shown in full and the full text is available from the publisher.
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.
Medical subject headings
- Chromatin
- Embryonic Stem Cells
- Nucleosomes
- Sequence Analysis, DNA
- Transcription, Genetic