Joint Profiling Of Chromatin Accessibility, DNA Methylation And Transcription In Single Cells

Clark, S. J.; Argelaguet, R.; Kapourani, C.-A.; Stubbs, T. M.; Lee, H. J.; Krueger, F.; Sanguinetti, G.; Kelsey, G.; Marioni, J. C.; Stegle, O.; Reik, W.

doi:10.1101/138685

bioRxiv · 10.1101/138685

Joint Profiling Of Chromatin Accessibility, DNA Methylation And Transcription In Single Cells

Clark, S. J.·Argelaguet, R.·Kapourani, C.-A.·Stubbs, T. M.·Lee, H. J.·Krueger, F.·Sanguinetti, G.·Kelsey, G.·Marioni, J. C.·Stegle, O.·Reik, W.

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Abstract

Parallel single-cell sequencing protocols represent powerful methods for investigating regulatory relationships, including epigenome-transcriptome interactions. Here, we report a novel 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.

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Clark, S. J., Argelaguet, R., Kapourani, C.-A., Stubbs, T. M., Lee, H. J., Krueger, F., Sanguinetti, G., Kelsey, G., Marioni, J. C., Stegle, O., Reik, W.. 2017-05-17. Joint Profiling Of Chromatin Accessibility, DNA Methylation And Transcription In Single Cells. https://doi.org/10.1101/138685

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