Genomics

Dataset Information

486

Tet1 and hydroxymethylcytosine in transcription and DNA methylation fidelity (ChIP/DIP-Seq data)


ABSTRACT: We analyzed the genome-wide binding of Tet1 in control (shScr) and Tet1 knockdown (shTet1) mouse ES cells using two different Tet1 antibodies (Tet1-C and Tet1-N). Furthermore, we generated genome-wide mapping of hydroxymethyl cytosine (hmC) and methyl cytosine (mC). We find that hmC, in contrast to mC, is also found at transcription start sites (TSSs), and that there is a significant overlap between Tet1 binding and hmC positive regions. Surprisingly, our results also suggest, that Tet1 has a role in transcriptional repression. We showed that Tet1 associates with Sin3A co-repressor complex, and by performing ChIP-sequencing of Sin3A, we find co-localisation of Tet1 and Sin3a throughout the genome Examination of Tet1 and Sin3A binding as well as hmC and mC localization in mouse ES cells

ORGANISM(S): Mus musculus  

SUBMITTER: Marianne T Pedersen   Kristine Williams 

PROVIDER: E-GEOD-24841 | ArrayExpress | 2011-04-13

SECONDARY ACCESSION(S): SRP004033SRP004034GSE24841PRJNA133431

REPOSITORIES: GEO, ArrayExpress, ENA

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Publications

TET1 and hydroxymethylcytosine in transcription and DNA methylation fidelity.

Williams Kristine K   Christensen Jesper J   Pedersen Marianne Terndrup MT   Johansen Jens V JV   Cloos Paul A C PA   Rappsilber Juri J   Helin Kristian K  

Nature 20110413 7347


Enzymes catalysing the methylation of the 5-position of cytosine (mC) have essential roles in regulating gene expression and maintaining cellular identity. Recently, TET1 was found to hydroxylate the methyl group of mC, converting it to 5-hydroxymethyl cytosine (hmC). Here we show that TET1 binds throughout the genome of embryonic stem cells, with the majority of binding sites located at transcription start sites (TSSs) of CpG-rich promoters and within genes. The hmC modification is found in gen  ...[more]

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