Here we report Droplet Paired-Tag, a rapid and robust method to simultaneously profile histone modifications and gene expression in single cells at scale. The new procedure provides researchers with a tool for studying the epigenome and gene regulation in complex tissues and disease pathogenesis.
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References
The ENCODE Project Consortium. Expanded encyclopaedias of DNA elements in the human and mouse genomes. Nature 583, 699–710 (2020). This paper describes how different epigenome modalities can regulate cell-type-specific gene expression programs.
Zhu, C. et al. Joint profiling of histone modifications and transcriptome in single cells from mouse brain. Nat. Methods 18, 283–292 (2021). This paper presents the combinatorial indexing-based Paired-Tag method.
Xie, Y. et al. Droplet-based single-cell joint profiling of histone modification and transcriptome. Protoc. Exch. https://doi.org/10.21203/rs.3.pex-2310/v1 (2023). This protocol describes the step-by-step method of Droplet Paired-Tag.
Kaya-Okur, H. et al. CUT&Tag for efficient epigenomic profiling of small samples and single cells. Nat. Commun. 10, 1930 (2018). This paper describes the CUT&Tag technology for efficient profiling of diverse chromatin components.
BRAIN Initiative Cell Census Network (BICCN).A multimodal cell census and atlas of the mammalian primary motor cortex. Nature 598, 86–102 (2021). This paper reports the generation of a multimodal cell atlas for the mammalian primary motor cortex using single-cell genomics technologies.
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This is a summary of: Xie, Y. et al. Droplet-based single-cell joint profiling of histone modifications and transcriptomes. Nat. Struct. Mol. Biol. https://doi.org/10.1038/s41594-023-01060-1 (2023).
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Single-cell joint analysis of gene expression and histone modifications in droplets. Nat Struct Mol Biol 30, 1407–1408 (2023). https://doi.org/10.1038/s41594-023-01076-7
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DOI: https://doi.org/10.1038/s41594-023-01076-7
