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Mus musculus

ABSTRACT: Genome-wide maps of Dnmt3a1 binding in WT and Tet1-/- J1 ES cells

PROVIDER: PRJNA393523 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR5812850_1.fastq.gz	Fastqsanger.gz
	SRR5812850_2.fastq.gz	Fastqsanger.gz
	SRR5812851_1.fastq.gz	Fastqsanger.gz
	SRR5812851_2.fastq.gz	Fastqsanger.gz
	SRR5812852_1.fastq.gz	Fastqsanger.gz

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Mus musculus

Project description:Genome-wide maps of Tet1 binding in [WT, Tet1-Flag] and [Dnmt3a-/-, Tet1-Flag] J1 ES cells

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Project description:Genome-wide maps of histone modifications in WT, Dnmt3a-/- and Tet1-/- J1 ES cells.

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Project description:Quantitative analysis of WT, Dnmt3a-/-, Dnmt3b-/- and Tet1-/- J1 ES cell transcriptomes

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Genome-wide maps of histone modifications (SpikeIn) and Suz12 in WT, Dnmt3a-/-, Tet1-/- J1 and DKO ES cells.

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Mus musculus

Project description:Comparison of Gene Expression Profiles of J1 ES and J1 EB Cells.

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Genome-wide maps of Tet1 binding in [WT, Tet1-Flag] and [Dnmt3a-/-, Tet1-Flag] J1 ES cells

Project description:In order to assess Tet1 binding, we first generated a Flag tagged Tet1 ES cells and then knocked out Dnmt3a in the [WT, Tet1-Flag] cells. By Tet1 ChIP and Flag ChIP, we showed that Tet1 binding was complementary to Dnmt3a. And Tet1 binding was not affected or slightly increased at majority of its targets.

2018-05-16 | GSE100955 | GEO

Mus musculus

Project description:Genome-wide chromatin state maps of ES cells, ES-derived neural progenitor cells and brain tissue

| PRJNA106863 | ENA

Mus musculus

Project description:Genome-wide maps of KDM5A/JARID1A/RBP2 in mouse ES cells.

| PRJNA139451 | ENA

Genome-wide Regulation of 5hmC, 5mC and Gene Expression by Tet1 Hydroxylase in Mouse Embryonic Stem Cells (expression data)

Project description:DNA methylation of C5-cytosine (5mC) in the mammalian genome is a key epigenetic event that is critical for various cellular processes. However, how the genome-wide 5mC pattern is dynamically regulated remains a fundamental question in epigenetic biology. The TET family of 5mC hydroxylases, which convert 5mC to 5-hydroxymethylcytosine (5hmC), have provided a new potential mechanism for the dynamic regulation of DNA methylation. The extent to which individual Tet family members contribute to the genome-wide 5mC and 5hmC patterns and associated gene network remains largely unknown. Here we report genome-wide mapping of Tet1 and 5hmC in mESCs and reveal a mechanism of action by which Tet1 controls 5hmC and 5mC levels in mESCs. In combination with microarray and mRNA-seq expression profiling, we identify a comprehensive yet intricate gene network influenced by Tet1. We propose a model whereby Tet1 controls DNA methylation both by binding to CpG-rich regions to prevent unwanted DNA methyltransferase activity, and by converting the existing 5mC to 5hmC through its enzymatic activity. This Tet1-mediated antagonism of CpG methylation imparts differential maintenance of DNA methylation status at Tet1 target loci, thereby providing a new regulatory mechanism for establishing the epigenetic landscape of mESCs, which ultimately contributes to mESC differentiation and the onset of embryonic development. Tet1 protein was depleted in J1 or E14 mouse ES cells by siRNA or shRNA treatment. Total RNA was purified and used to determine the global gene transcription profiles by microarray assays. The Tet1-regulated genes were identified by comparing the gene expression profiles of control and Tet1-depleted ES cells.

2011-04-21 | E-GEOD-28530 | biostudies-arrayexpress

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