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TChIP-Seq: Cell-Type-Specific Epigenome Profiling
Published on: January 23, 2019
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Spatially resolved epigenomic profiling of single cells in complex tissues
Tian Lu1, Cheen Euong Ang1, Xiaowei Zhuang1
1Howard Hughes Medical Institute, Harvard University, Cambridge, MA 02138, USA; Department of Chemistry and Chemical Biology, Harvard University, Cambridge, MA 02138, USA; Department of Physics, Harvard University, Cambridge, MA 02138, USA.
Cell
|October 22, 2022
Summary
Researchers developed a new spatial epigenomics method for single-cell profiling. This technique maps epigenetic marks in the brain, revealing gene regulation insights.
Area of Science:
- Genomics and Epigenomics
- Spatial Biology
- Single-cell Analysis
Background:
- Spatial omics methods allow single-cell transcriptome and 3D genome profiling with spatial resolution.
- A need exists for spatially resolved single-cell epigenomics to understand spatial regulation of cellular functions.
- Current methods lack the ability to profile epigenomic features at single-cell resolution within their native spatial context.
Purpose of the Study:
- To develop and demonstrate a novel method for spatially resolved epigenomic profiling of single cells.
- To create high-resolution spatial atlases of epigenetic modifications in the mouse brain.
- To identify novel regulatory elements and their interactions in the context of spatial gene regulation.
Main Methods:
- Development of a spatially resolved single-cell epigenomics method using in situ tagmentation and transcription.
- Multiplexed imaging techniques were employed for high-resolution profiling.
- Profiling of histone modifications associated with active promoters, putative enhancers, and silent promoters.
Main Results:
- Successful profiling of histone modifications at active promoters, putative enhancers, and silent promoters in individual cells.
- Generation of high-resolution spatial atlases of hundreds of active promoters and putative enhancers in embryonic and adult mouse brains.
- Identification of putative promoter-enhancer pairs and enhancer hubs involved in regulating developmentally important genes.
Conclusions:
- The developed method enables spatially resolved epigenomic profiling at the single-cell level.
- This approach provides insights into the spatial organization of the epigenome and its role in gene regulation.
- The method is envisioned to be broadly applicable for profiling various epigenetic modifications and DNA-binding proteins, advancing the understanding of spatiotemporal gene expression regulation.
