Transcriptomics,Genomics

Dataset Information

300

Unique cell cycle-dependent variations in the pluripotent epigenetic landscape define novel cohorts of temporal expressed bivalent genes during hESCs differentiation


ABSTRACT: By mapping the genomic enrichments  of H3K4me3 and H3K27me3 modifications in pure populations of hESCs during the G2, mitotic and G1 phases of the cell cycle, we characterize cell cycle-dependent variations in the epigenetic landscape of bivalent genes, altering the current view of mitotic inheritance in pluripotent cells. We identified novel classes of bivalent domains that are highly enriched with H3K4me3 during mitosis, depleted during G1 only, and ubiquitously bivalent. These bivalent domains are associated with specific genes and expression patterns during differentiation. These cell cycle-dependent epigenetic profiles are unique to hESCs and are not observed following initiation of phenotype commitment. Our results establish a new dimension in cell cycle-dependent chromatin regulation that advances understanding of contributions the pluripotent epigenetic landscape to hESC identity. Study of two histone modifications, H3K4me3 and H3K27me3, during three cell cycle phases in two cell types. Study of gene expression from these two cell types in asynchronous cells.

ORGANISM(S): Homo sapiens  

SUBMITTER: Troy W. Whitfield   Rodrigo A Grandy  Troy W Whitfield 

PROVIDER: E-GEOD-55502 | ArrayExpress | 2015-12-23

SECONDARY ACCESSION(S): SRP039346GSE55502PRJNA239803

REPOSITORIES: GEO, ArrayExpress, ENA

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Publications

Genome-Wide Studies Reveal that H3K4me3 Modification in Bivalent Genes Is Dynamically Regulated during the Pluripotent Cell Cycle and Stabilized upon Differentiation.

Grandy Rodrigo A RA   Whitfield Troy W TW   Wu Hai H   Fitzgerald Mark P MP   VanOudenhove Jennifer J JJ   Zaidi Sayyed K SK   Montecino Martin A MA   Lian Jane B JB   van Wijnen André J AJ   Stein Janet L JL   Stein Gary S GS  

Molecular and cellular biology 20151207 4


Stem cell phenotypes are reflected by posttranslational histone modifications, and this chromatin-related memory must be mitotically inherited to maintain cell identity through proliferative expansion. In human embryonic stem cells (hESCs), bivalent genes with both activating (H3K4me3) and repressive (H3K27me3) histone modifications are essential to sustain pluripotency. Yet, the molecular mechanisms by which this epigenetic landscape is transferred to progeny cells remain to be established. By  ...[more]

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