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Genome-wide maps of Cap signal in control and Tet3 inactivated lung smooth muscle cells

ABSTRACT: Genome-wide maps of Cap signal in control and Tet3 inactivated lung smooth muscle cells

PROVIDER: PRJNA706447 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR13853459.fastq.gz	Fastqsanger.gz
	SRR13853460.fastq.gz	Fastqsanger.gz
	SRR13853461.fastq.gz	Fastqsanger.gz
	SRR13853462.fastq.gz	Fastqsanger.gz

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Genome-wide maps of Cap signal in control and Tet3 inactivated lung smooth muscle cells

Project description:To examine the initiation cap signal after Tet3 inactivation, we performed the Cap analysis gene expression (CAGE) sequencing with total RNA from control and Tet3 inactivated lung smooth muscle cells.

2021-04-01 | GSE168206 | GEO

Genome-wide maps of 5hmC in control and Tet3 inactivated lung smooth muscle cells

Project description:To examine the influences for 5hmC enrichment on genome wide after Tet3 inactivation, we determined the enrichment profiles of 5hmC, the direct demethylated target of Tet3, by hMeDIP-seq with genomic DNA from control and Tet3 inactivated lung smooth muscle cells

2021-04-30 | GSE166830 | GEO

Genome-wide maps of 5hmC in control and Tet3 inactivated lung smooth muscle cells.

Project description:To examine the influences for 5hmC enrichment on genome wide after Tet3 inactivation, we determined the enrichment profiles of 5hmC, the direct demethylated target of Tet3, by Nano-hmC-seq with genomic DNA from control and Tet3 inactivated lung smooth muscle cells

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Genome-wide maps of 5hmC in control and Tet3 inactivated lung smooth muscle cells.

Project description:Genome-wide maps of 5hmC in control and Tet3 inactivated lung smooth muscle cells.

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Genome-wide maps of 5hmC in control and Tet3 inactivated lung smooth muscle cells

Project description:Genome-wide maps of 5hmC in control and Tet3 inactivated lung smooth muscle cells

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Tet3 KO in lung smooth muscle cells

Project description:Tet3 was deleted in smooth muscle cells by tamoxifen-induced Cre-recombination in 8 weeks old mice. Laser-capture microdissection was used to isolate bronchiolar or vascular tissue from lung sections of 16 weeks old mice for transcriptome analysis.

2022-09-19 | E-MTAB-10144 | biostudies-arrayexpress

Next Generation Sequencing Facilitates Quantitative Analysis of control smooth muscle cells and Tet3-inactivation smooth muscle cells transcriptomes

Project description:Next Generation Sequencing Facilitates Quantitative Analysis of control smooth muscle cells and Tet3-inactivation smooth muscle cells transcriptomes

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Rest recruits neuronal Tet3 to induce chromatin remodeling and gene expression

Project description:Ten-eleven translocation (Tet) hydroxylases (Tet1-3) oxidize 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC). In neurons increased 5hmC levels within gene bodies correlate positively with gene expression. The mechanisms controlling Tet activity and 5hmC levels are poorly understood. In particular, it is not known how the neuronal Tet3 isoform lacking a DNA binding domain is targeted to the DNA. To identify factors binding to Tet3 we screened for proteins that co-precipitate with Tet3 from mouse retina and identified the transcriptional repressor Rest as a highly enriched Tet3-specific interactor. Rest was able to enhance Tet3 hydroxylase activity after co-expression and overexpression of Tet3 activated transcription of Rest-target genes. Moreover, we found that Tet3 also interacts with Nsd3 and two other H3K36 methyltransferases and is able to induce H3K36 trimethylation. We propose a mechanism for transcriptional activation in neurons that involves Rest-guided targeting of Tet3 to the DNA for directed 5hmC-generation and Nsd3-mediated H3K36 trimethylation.

2015-04-02 | PXD001857 | Pride

Redirected nuclear glutamate dehydrogenase supplies Tet3 with a-ketoglutarate in neurons

Project description:Tet3 is an Fe2+-dependent enzyme that oxidizes genomic 5-methylcytosine to 5-hydroxymethylcytosine with the help of alpha-ketoglutarate and oxygen. It is the most abundant Tet enzyme in differentiated tissues including brain. Adult brain contains the highest 5-hydroxymethylcytosine levels. How alpha-ketoglutarate is made available for the oxidation of mC in brain cells and how the Tet activity is linked to neural activity are unsolved questions. Our experiments with full mouse brains show that Tet3 interacts in the nucleus directly with selected enzymes of the mitochondrial citric acid cycle. This leads to the formation of isocitrate. Tet3 also interacts with aspartate aminotransferase, which produces oxaloacetate. Although oxaloacetate and isocitrate are biosynthetic alpha-ketoglutarate precursors, they function as inhibitors of Tet3 and are needed to protect the reactive Fe2+ center from degrading DNA. The supply of Tet3 with alpha-ketoglutarate is established by a direct interaction of Tet3 with glutamate dehydrogenase (Glud1), which converts the neurotransmitter glutamate directly into alpha-ketoglutarate. This links Tet3 function to neural activity.

2021-05-10 | PXD004518 | Pride

PGC7 and TET3 ChIP-seq results

Project description:PGC7 is a primordial germ cell (PGCs)-specific protein involved in epigenetic chromatin reprogramming in the zygote following fertilization. TET3 is a dioxygenase that catalyzes the conversion of the modified genomic base 5-methylcytosine (5mC) into 5-hydroxymethylcytosine (5hmC) and plays a key role in epigenetic chromatin reprogramming in the zygote following fertilization. PGC7 participates in protection of DNA methylation in the maternal pronucleus by preventing conversion of 5mC to 5hmC by TET3 oxidization subsequent DNA demethylation. Thus we tested the co-localization of PGC7 and TET3 in specific loci by ChIP-seq assays.

2014-01-04 | E-GEOD-53809 | biostudies-arrayexpress

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