Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Effect of TET1 overexpression on DNA methylation levels of HEK293 cells

ABSTRACT: We compared TET1 overexpressing cells to uninduced cells with endogenous TET1 transcript levels to determine DNA methylation changes.

ORGANISM(S): Homo sapiens

PROVIDER: GSE67349 | GEO | 2015/07/16

SECONDARY ACCESSION(S): PRJNA279567

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Effect of TET1 overexpression on hydroxymethylcytosine levels of HEK293 cells

Project description:We compared TET1 overexpressing cells to uninduced cells with endogenous TET1 transcript levels to determine changes of hydroxymethylcytosine levels using RRHP.

2015-07-16 | GSE67621 | GEO

Effect of TET1 overexpression on DNA methylation levels of HEK293 cells

Project description:We compared TET1 overexpressing cells to uninduced cells with endogenous TET1 transcript levels to determine DNA methylation changes. TET1 overexpression

2015-07-16 | E-GEOD-67349 | biostudies-arrayexpress

Effect of TET1 and TET3 overexpression on the transcriptome of HEK293 cells

Project description:We compared TET1 and TET3 overexpressing cells to uninduced cells with endogenous levels of the respective transcript to determine global gene expression changes.

2015-07-16 | GSE39186 | GEO

Effect of TET1 and TET3 overexpression on the transcriptome of HEK293 cells

Project description:We compared TET1 and TET3 overexpressing cells to uninduced cells with endogenous levels of the respective transcript to determine global gene expression changes. TET1 overexpression, TET3 overexpression

2015-07-16 | E-GEOD-39186 | biostudies-arrayexpress

Effect of NPAP1/C15orf2 overexpression on transcriptome of HEK293 cells

Project description:To gain insight into the function of Nuclear pore associated protein 1 (NPAP1, formerly C15orf2), we overexpressed NPAP1 in HEK293 cells. We detected no significant difference between NPAP1-expression of induced and uninduced cells in three technical replicates, exept for an approximately 10-fold increase in the NPAP1 transcript itself. This indicates that overexpression of NPAP1 does not change mRNA expression profiles of HEK293 cells. We used microarrays to investigate global gene expression changes depending on the level of NPAP1/C15orf2 We compared NPAP1 overexpressing cells to untreated cells, which do not express detectable amounts of NPAP1 protein, to determine global gene expression changes.

2012-06-17 | E-GEOD-36575 | biostudies-arrayexpress

TET1 interactome in mESCs (via ChIP-MS)

Project description:Precise regulation of DNA methylation in mammals is critical for genome stability and epigenetic regulation. The discovery of the ten-eleven translocation (TET) proteins catalyzing the oxidation from 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC), 5-formylcytosine (5fC), and 5-carboxylcytosine (5caC) revolutionized the perspective on the complexity and regulation of DNA modifications. Despite accumulating knowledge about the role of TET1, it remains unclear to what extent these can be attributed to its catalytic activity. Here, we use genome engineering and quantitative multi-omics approaches to dissect the role and mechanism of TET1 in mESCs. Our study identifies TET1 as an essential interaction hub for multiple chromatin modifying complexes and as a global regulator of histone modifications. Strikingly, we find that the majority of transcriptional regulation depends on non-catalytic functions of TET1. Moreover, we show that the establishment of H3K9me3 and H4K20me3 at ERV1, ERVK, and ERVL is mediated by TET1 independent of DNA demethylation. We provide evidence that repression of endogenous retroviruses depends on the interaction between TET1 and SIN3A. In summary, we demonstrate that the non-catalytic functions of TET1 are critical for regulation of gene expression and the silencing of endogenous retroviruses in mESCs.

2022-08-31 | PXD028850 | Pride

Effect of NPAP1/C15orf2 overexpression on transcriptome of HEK293 cells

2012-06-18 | GSE36575 | GEO

Quantification of transcriptome levels in mouse spermatogonia TET1 overexpression group and control cells by RNA-seq

Project description:By analyzing the sequencing results of RNA-seq, we found that TET1 maintains self-renewal of mouse spermatogonia and promotes cellular transcription and enhances cellular activity, and we identified key differential genes that are specifically affected by TET1 and the mechanism of interaction between these key differential genes, providing a scientific basis for studying spermatogenesis, revealing the causes of spermatogenic disorders, and elucidated the mechanisms, which may contribute to the understanding of male reproductive disorders.

2022-01-17 | GSE193717 | GEO

TET1 interactome by SILAC IP-MS in mouse ESCs

Project description:TET1 maintains hypomethylation at bivalent promoters through its catalytic activity in embryonic stem cells (ESCs). However, whether and how TET1 exerts catalytic activity-independent functions in regulating bivalent genes is not well understood. Therefore, we mapped the TET1 interactome in mouse ESCs using a SILAC IP-MS proteomics approach.

2022-06-10 | PXD033587 | Pride

TET1 is a maintenance DNA demethylase that prevents methylation spreading in adult cells [MeDIP-Seq]

Project description:We report that full length TET1 (TET1-FL) overexpression fails to induce global DNA demethylation in HEK293T cells. The preferential binding of TET1-FL to hypomethylated CpG islands (CGIs) through its CXXC domain leads to its inhibited 5-hydroxymethylcytosine (5hmC) production as methylation level increases. TET1-FL-induced 5hmC accumulates at CGI edges, while TET1 knockdown induces methylation spreading from methylated edges into hypomethylated CGIs. However, TET1 can regulate gene transcription independent of its dioxygenase catalytic function. Thus, our results identify TET1 as a maintenance DNA demethylase that does not purposely decrease methylation levels, but specifically maintains the DNA hypomethylation state of CGIs in adult cells. hMeDIP-seq analysis of genomic 5-hydroxymethylcytosine in HEK293T cells overexpressing mTET1-CD, TET1-CD, mTET1-FL, or TET1-FL

2014-06-04 | E-GEOD-44036 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data