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MetabolomicsCell of origin epigenetic priming determines susceptibility to Tet2 mutation

Hematopoietic stem cell (HSC) mutations can result in clonal hematopoiesis (CH) with heterogeneous clinical outcomes. Here, we investigated how the cell state preceding Tet2 mutation impacts the pre-malignant phenotype. Using an inducible system for clonal analysis of myeloid progenitors...

2024-04-30 | MTBLS9914 | MetaboLights
MetabolomicsRedirected nuclear glutamate dehydrogenase supplies Tet3 with α-ketoglutarate in neurons

Tet3 is the main α-ketoglutarate (αKG)-dependent dioxygenase in neurons that converts 5-methyl-dC into 5-hydroxymethyl-dC and further on to 5-formyl- and 5-carboxy-dC. Neurons possess high levels of 5-hydroxymethyl-dC that further increase during neural activity to establish transcriptional plast...

2021-06-24 | MTBLS2852 | MetaboLights
TranscriptomicsTet proteins in DNA demethylation and cell fate restriction
DNA methylation at 5-position of cytosine (5mC) is one of the best studied epigenetic modifications that plays important roles in diverse biological processes. Iterative oxidation of 5mC by the Ten-eleven translocation (Tet) family of proteins generates 5-hydroxymethylcytosine (5hmC), 5-formylcytosi...
ORGANISM(S): Mus musculus 
2014-09-22 | E-GEOD-56986 | biostudies-arrayexpress
GenomicsDNA demethylation by Tet dioxygenases controls gastrula patterning by regulating Lefty-Nodal signaling
Mammalian genomes are subjected to epigenetic modifications, including cytosine methylation by DNA methyltransferases (Dnmt) and further oxidation by Ten-eleven-translocation (Tet) family of dioxygenases. Cytosine methylation plays key roles in multiple processes such as genomic imprinting and X-chr...
ORGANISM(S): Mus musculus 
2016-10-27 | E-GEOD-76261 | biostudies-arrayexpress
GenomicsLoss of Tet enzymes compromises proper differentiation of embryonic stem cells
Tet enzymes (Tet1/2/3) catalyze the conversion of 5-methylcytosine (5mC) to 5-hydroxy-methylcytosine (5hmC) and are dynamically expressed in various embryonic and adult cell types. While loss of individual Tet enzymes or combined deficiency of Tet1/2 allows for embryogenesis, the effect of complete ...
ORGANISM(S): Mus musculus 
2014-04-17 | E-GEOD-55049 | biostudies-arrayexpress
GenomicsTet and TDG Mediate DNA Demethylation Essential for MET in Somatic Cell Reprogramming
Tet-mediated DNA oxidation is a new type of epigenetic modification in mammals and its role in the regulation of cell fate transition remains poorly understood. Here, we derive mouse embryonic fibroblasts (MEFs) deleted in all three Tet genes and examine their capability to be reprogrammed into iPS ...
ORGANISM(S): Mus musculus 
2014-02-19 | E-GEOD-52741 | biostudies-arrayexpress
TranscriptomicsExpression data from β-globin let7 HeLa tet off cells treated with doxycycline
We used microarray to determine the genes whose expression was changed at six hours after doxycycline treatment Cells were transfected with β-globin let7 wt constructs. Two-condition experiment; HeLa tet off cells overexpressed control vs HeLa tet off cells treated with doxycycline for six hours
ORGANISM(S): Homo sapiens 
2016-03-15 | E-GEOD-66541 | biostudies-arrayexpress
GenomicsA Primary Role of TET Proteins in Establishment and Maintenance of De Novo Bivalency at CpG Islands of Developmental Genes
TET protein-catalyzed 5mC oxidation not only creates novel DNA modifications such as 5hmC, but also initiates active or passive DNA demethylation. However, the TETs’ function in crosstalk with specific histone modifications is largely elusive. Here, we show that TET2-mediated DNA demethylation pla...
ORGANISM(S): Mus musculus 
2016-07-25 | E-GEOD-72481 | biostudies-arrayexpress
GenomicsChIP-chip from HEK293-RPF-1 stable transfectants expressing the HA-tagged RPF-1 transcription factor
RPF-1 binds promoters of genes modulated by its induction in HEK/RPF-1 transfectant Chromatin IP (ChIP) combined to chromatin array analysis (ChIP-chip) shows that RPF-1 transcription factor bind to promoter elements of genes repressed or activated by RPF-1 expression Comparison of cells induced for...
ORGANISM(S): Homo sapiens 
2016-09-06 | E-GEOD-55270 | biostudies-arrayexpress
TranscriptomicsEffect of the simultaneous knockdown of TET1, TET2 and TET3 on the transcriptome of HEK293 cells
We compared TET triple knockdown cells to control cells treated with non-targeting siRNAs to determine global gene expression changes. TET triple knockdown
ORGANISM(S): Homo sapiens 
2015-07-16 | E-GEOD-67348 | biostudies-arrayexpress
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