Single-cell chromatin immunocleavage sequencing (scChIC-seq) to profile histone modification

Nat Methods. 2019 Apr;16(4):323-325. doi: 10.1038/s41592-019-0361-7. Epub 2019 Mar 28.

Abstract

Our method for analyzing histone modifications, scChIC-seq (single-cell chromatin immunocleavage sequencing), involves targeting of the micrococcal nuclease (MNase) to a histone mark of choice by tethering to a specific antibody. Cleaved target sites are then selectively PCR amplified. We show that scChIC-seq reliably detects H3K4me3 and H3K27me3 target sites in single human white blood cells. The resulting data are used for clustering of blood cell types.

Publication types

  • Research Support, N.I.H., Intramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • Antibodies / chemistry
  • Chromatin / chemistry*
  • Chromatin Immunoprecipitation
  • Computational Biology
  • DNA / chemistry
  • Epigenomics
  • Genome
  • High-Throughput Nucleotide Sequencing
  • Histone Code
  • Histones / chemistry*
  • Humans
  • Leukocytes / cytology
  • Leukocytes / metabolism
  • Male
  • Mice
  • Micrococcal Nuclease / chemistry*
  • NIH 3T3 Cells
  • Nucleosomes
  • Polymerase Chain Reaction
  • Promoter Regions, Genetic
  • Protein Processing, Post-Translational
  • Reproducibility of Results
  • Sequence Analysis, DNA
  • Software

Substances

  • Antibodies
  • Chromatin
  • Histones
  • Nucleosomes
  • histone H3 trimethyl Lys4
  • DNA
  • Micrococcal Nuclease