Profiling Histone Methylation in Low Numbers of Cells

Methods Mol Biol. 2022:2529:229-251. doi: 10.1007/978-1-0716-2481-4_11.


Chromatin immunoprecipitation (ChIP) enables the study of DNA-protein interactions. When coupled with high-throughput sequencing (ChIP-seq), this method allows the generation of genome-wide profiles of the distribution of specific proteins in a given cellular context. Typical ChIP-seq experiments require millions of cells as input material and thus are not ideal to study many in vivo cell populations. Here, we describe an ultra-low-input native ChIP-seq method, ULI-NChIP-seq, to profile histone modification patterns in as low as 150 cells.

Keywords: Chromatin; Chromatin immunoprecipitation; Embryo; Epigenetics; Histone modifications; Low-input; Methylation; Oocyte.

MeSH terms

  • Chromatin Immunoprecipitation / methods
  • High-Throughput Nucleotide Sequencing* / methods
  • Histones* / genetics
  • Histones* / metabolism
  • Methylation
  • Protein Processing, Post-Translational
  • Sequence Analysis, DNA / methods


  • Histones