Skip to main content

Thank you for visiting nature.com. You are using a browser version with limited support for CSS. To obtain the best experience, we recommend you use a more up to date browser (or turn off compatibility mode in Internet Explorer). In the meantime, to ensure continued support, we are displaying the site without styles and JavaScript.

sortChIC enables detailed chromatin analysis of rare cell types

Current methods of chromatin analysis focus mainly on the most abundant cell types in a sample. We present a workflow that combines enrichment of rare cell types with high-resolution mapping of histone modifications, which enables us to study chromatin dynamics in rare stem and progenitor cell populations.

This is a preview of subscription content, access via your institution

Access options

Buy article

Get time limited or full article access on ReadCube.

$32.00

All prices are NET prices.

Fig. 1: Integration of FACS information into chromatin analysis.

References

  1. Jambhekar, A. et al. Roles and regulation of histone methylation in animal development. Nat. Rev. Mol. Cell Biol. 20, 625–641 (2019). This review summarizes the roles of histone modifications discovered through knockout experiments.

    Article  CAS  Google Scholar 

  2. Schmid, M. et al. ChIC and ChEC: Genomic mapping of chromatin proteins. Mol. Cell 16, 147–157 (2004). This paper reports the development of chromatin immunocleavage for antibody-based chromatin analysis by targeted fragmentation.

    CAS  Google Scholar 

  3. Baron, C. S., Barve, A. & Muraro, M. J. Cell type purification by single-cell transcriptome-trained sorting. Cell 179, 527–542 (2019). This article presents how integrating single-cell transcriptomics data with FACS index sorting data can be used to set non-intuitive sorting gates for cell-type enrichment in the absence of surface markers or transgenes.

    Article  CAS  Google Scholar 

  4. Stoeckius, M. et al. Simultaneous epitope and transcriptome measurement in single cells. Nat. Methods 14, 865–868 (2017). This article presents quantitative proteome analysis by single-cell sequencing.

    Article  CAS  Google Scholar 

  5. Skene, P. et al. An efficient targeted nuclease strategy for high-resolution mapping of DNA binding sites. eLife 6, e21856 (2017). This article presents CUT&RUN as a high-sensitivity sequencing approach for chromatin analysis.

    Article  Google Scholar 

Download references

Additional information

Publisher’s note Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.

This is a summary of: Zeller, P. et al. Single-cell sortChIC identifies hierarchical chromatin dynamics during hematopoiesis. Nat. Genet. https://doi.org/10.1038/s41588-022-01260-3 (2022).

Rights and permissions

Reprints and Permissions

About this article

Verify currency and authenticity via CrossMark

Cite this article

sortChIC enables detailed chromatin analysis of rare cell types. Nat Genet (2023). https://doi.org/10.1038/s41588-022-01259-w

Download citation

  • Published:

  • DOI: https://doi.org/10.1038/s41588-022-01259-w

Search

Quick links

Nature Briefing

Sign up for the Nature Briefing newsletter — what matters in science, free to your inbox daily.

Get the most important science stories of the day, free in your inbox. Sign up for Nature Briefing