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NuRD-interacting protein ZFP296 regulates genome-wide NuRD localization and differentiation of mouse embryonic stem cells (ChIP-seq)

ABSTRACT: NuRD-interacting protein ZFP296 regulates genome-wide NuRD localization and differentiation of mouse embryonic stem cells (ChIP-seq)

PROVIDER: PRJNA481668 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR7535490_1.fastq.gz	Fastqsanger.gz
	SRR7535490_2.fastq.gz	Fastqsanger.gz
	SRR7535500_1.fastq.gz	Fastqsanger.gz
	SRR7535500_2.fastq.gz	Fastqsanger.gz
	SRR7535510_1.fastq.gz	Fastqsanger.gz

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NuRD-interacting protein ZFP296 regulates genome-wide NuRD localization and differentiation of mouse embryonic stem cells (RNA-seq)

Project description:The Nucleosome Remodeling and Deacetylase (NuRD) complex plays an important role in gene expression regulation, stem cell self-renewal, and lineage commitment. Yet little is known about the dynamics of NuRD during cellular differentiation. Here, we study these dynamics using genome-wide profiling and quantitative interaction proteomics in mouse embryonic stem cells (ESCs) and neural progenitor cells (NPCs). The genomic targets of NuRD are highly dynamic during differentiation, with most binding occurring at cell-type specific promoters and enhancers. We identify ZFP296 as a novel, ESC-specific NuRD interactor that also interacts with the SIN3A complex. ChIP-sequencing in Zfp296 knockout (KO) ESCs reveals decreased NuRD binding both genome-wide and at ZFP296 binding sites, although this has little effect on the transcriptome. Nevertheless, Zfp296 KO ESCs exhibit delayed induction of lineage-specific markers upon differentiation to embryoid bodies. In summary, we identify an ESC-specific NuRD interacting protein which regulates genome-wide NuRD binding and cellular differentiation.

2018-10-10 | GSE117288 | GEO

NuRD-interacting protein ZFP296 regulates genome-wide NuRD localization and differentiation of mouse embryonic stem cells (ChIP-seq)

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NuRD-interacting protein ZFP296 regulates genome-wide NuRD localization and differentiation of mouse embryonic stem cells

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NuRD-interacting protein ZFP296 regulates genome-wide NuRD localization and differentiation of mouse embryonic stem cells

Project description:NuRD-interacting protein ZFP296 regulates genome-wide NuRD localization and differentiation of mouse embryonic stem cells

| PRJNA481664 | ENA

NuRD-interacting protein ZFP296 regulates genome-wide NuRD localization and differentiation of mouse embryonic stem cells (RNA-seq)

Project description:NuRD-interacting protein ZFP296 regulates genome-wide NuRD localization and differentiation of mouse embryonic stem cells (RNA-seq)

| PRJNA481667 | ENA

NuRD-interacting protein ZFP296 regulates genome-wide NuRD localization and differentiation of mouse embryonic stem cells.

Project description:The nucleosome remodeling and deacetylase (NuRD) complex plays an important role in gene expression regulation, stem cell self-renewal, and lineage commitment. However, little is known about the dynamics of NuRD during cellular differentiation. Here, we study these dynamics using genome-wide profiling and quantitative interaction proteomics in mouse embryonic stem cells (ESCs) and neural progenitor cells (NPCs). We find that the genomic targets of NuRD are highly dynamic during differentiation, with most binding occurring at cell-type specific promoters and enhancers. We identify ZFP296 as an ESC-specific NuRD interactor that also interacts with the SIN3A complex. ChIP-sequencing in Zfp296 knockout (KO) ESCs reveals decreased NuRD binding both genome-wide and at ZFP296 binding sites, although this has little effect on the transcriptome. Nevertheless, Zfp296 KO ESCs exhibit delayed induction of lineage-specific markers upon differentiation to embryoid bodies. In summary, we identify an ESC-specific NuRD-interacting protein which regulates genome-wide NuRD binding and cellular differentiation.

| S-EPMC6214896 | biostudies-literature

NuRD-interacting protein ZFP296 regulates genome-wide NuRD localization and differentiation of mouse embryonic stem cells

Project description:This SuperSeries is composed of the SubSeries listed below.

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Zfp296 knockout enhances chromatin accessibility and induces a unique state of pluripotency in embryonic stem cells [ChIP-seq]

Project description:Zfp296 KO profoundly affects the gene expression patterns of ESCs. ZFP296 belongs to the C2H2-type ZF family. To map the ZFP296 binding sites across the whole genome, chromatin immunoprecipitation DNA-sequencing (ChIP-seq) was performed.

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Zfp296 knockout enhances chromatin accessibility and induces a unique state of pluripotency in embryonic stem cells [RNA-seq-2]

Project description:Zfp296-KO ESCs grew as flat colonies and could not form teratomas, but could contribute to germline-competent chimeric mice. To analyze the molecular mechanisms causing these unique phenotypes, we compared gene expression profiles among wild-type (WT), Zfp296-KO, and Zfp296-rescue ESCs by RNA-sequencing.

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Zfp296 knockout enhances chromatin accessibility and induces a unique state of pluripotency in embryonic stem cells [RNA-seq-1]

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