GAGE-seq concurrently profiles multiscale 3D genome organization and gene expression in single cells.

ABSTRACT: The organization of mammalian genomes features a complex, multiscale three-dimensional (3D) architecture, whose functional significance remains elusive because of limited single-cell technologies that can concurrently profile genome organization and transcriptional activities. Here, we introduce genome architecture and gene expression by sequencing (GAGE-seq), a scalable, robust single-cell co-assay measuring 3D genome structure and transcriptome simultaneously within the same cell. Applied to mouse brain cortex and human bone marrow CD34⁺ cells, GAGE-seq characterized the intricate relationships between 3D genome and gene expression, showing that multiscale 3D genome features inform cell-type-specific gene expression and link regulatory elements to target genes. Integration wit

SUBMITTER: Zhou T 

PROVIDER: S-EPMC11323187 | biostudies-literature | 2024 Aug

REPOSITORIES: biostudies-literature