Joint profiling of chromatin accessibility, DNA methylation and transcription in single cells
By Stephen J. Clark, R. Argelaguet, Chantriolnt-Andreas Kapourani, Thomas M. Stubbs, Heather J. Lee, Felix Krueger, G. Sanguinetti, G. Kelsey, John C. Marioni, Oliver Stegle and 1 more. 2017
13 citations recorded by the source corpus.
Parallel single-cell sequencing protocols represent powerful methods for investigating regulatory relationships, including epigenome-transcriptome interactions. Here, we report the first 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 mouse embryonic stem cells, finding links between all three molecular layers and revealing strong and widespread associations between chromatin accessibility and DNA methylation.
Subfields: Molecular Biology
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In Molecular Biology
- Casey S. Greene
- Yifan Peng
- Brett K. Beaulieu-Jones
- G. Way
- Amr M. Alexandari
- Zhiyong Lu
- Avanti Shrikumar
- S. Joshua Swamidass
Citations in the corpus
- Opportunities and obstacles for deep learning in biology and medicine (2017, background): “Joint profiling of single-cell epigenetic and transcriptional states provides unprecedented views of regulatory processes [215].”