FACS-based isolation of fixed mouse neuronal nuclei for ATAC-seq and Hi-C

Ekaterina Eremenko, Anastasia Golova, Daniel Stein, Monica Einav, Ekaterina Khrameeva, Debra Toiber

Research output: Contribution to journalArticlepeer-review

Abstract

The organization of chromatin structure plays a crucial role in gene expression, DNA replication, and repair. Chromatin alterations influence gene expression, and modifications could be associated with genomic instability in the cells during aging or diseases. Here, we provide a modified protocol to isolate fixed neuronal nuclei from a single mouse cortex to investigate the spatial organization of chromatin structure on a genome-wide scale by ATAC-seq (the assay for transposase-accessible chromatin with high-throughput sequencing) and chromatin conformation by Hi-C (high-throughput chromosome conformation capture).

Original languageEnglish
Article number100643
JournalSTAR Protocols
Volume2
Issue number3
DOIs
Publication statusPublished - 17 Sep 2021

Keywords

  • Cell Biology
  • Cell separation/fractionation
  • Flow Cytometry/Mass Cytometry
  • Genomics
  • Neuroscience

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