Simultaneous profiling of spatial gene expression and chromatin accessibility during mouse brain development

Nat Methods. 2023 Jul;20(7):1048-1057. doi: 10.1038/s41592-023-01884-1. Epub 2023 May 25.

Abstract

The brain is a complex tissue whose function relies on coordinated anatomical and molecular features. However, the molecular annotation of the spatial organization of the brain is currently insufficient. Here, we describe microfluidic indexing-based spatial assay for transposase-accessible chromatin and RNA-sequencing (MISAR-seq), a method for spatially resolved joint profiling of chromatin accessibility and gene expression. By applying MISAR-seq to the developing mouse brain, we study tissue organization and spatiotemporal regulatory logics during mouse brain development.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • Brain
  • Chromatin* / genetics
  • Gene Expression
  • Gene Expression Profiling
  • High-Throughput Nucleotide Sequencing* / methods
  • Mice
  • Sequence Analysis, RNA

Substances

  • Chromatin