Single-cell landscape of nuclear configuration and gene expression during stem cell differentiation and X inactivation.

ABSTRACT:

Background

Mammalian development is associated with extensive changes in gene expression, chromatin accessibility, and nuclear structure. Here, we follow such changes associated with mouse embryonic stem cell differentiation and X inactivation by integrating, for the first time, allele-specific data from these three modalities obtained by high-throughput single-cell RNA-seq, ATAC-seq, and Hi-C.

Results

Allele-specific contact decay profiles obtained by single-cell Hi-C clearly show that the inactive X chromosome has a unique profile in differentiated cells that have undergone X inactivation. Loss of this inactive X-specific structure at mitosis is followed by its reappearance during the cell cycle, suggesting a "bookmark" mechanism. Differentiation of embryonic stem cells to

SUBMITTER: Bonora G 

PROVIDER: S-EPMC8474932 | biostudies-literature | 2021 Sep

REPOSITORIES: biostudies-literature