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The interactome of Pou5f1 enhancer in mouse embryonic stem cells

ABSTRACT: We report the application of enyzme-based 4C-Seq technique for exploring Pou5f1 enhancer interactome in mouse ES cells.

ORGANISM(S): Mus musculus

PROVIDER: GSE45418 | GEO | 2013/04/28

SECONDARY ACCESSION(S): PRJNA193670

REPOSITORIES: GEO

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The interactome of Pou5f1 enhancer in mouse embryonic stem cells

Project description:We report the application of enyzme-based 4C-Seq technique for exploring Pou5f1 enhancer interactome in mouse ES cells. We explored the interactome of Pou5f1 upstream enhancer in mouse ES cells by using an enzyme digestion based 4C-Seq protocol. The interactome is involved in gene active regulation.

2013-04-28 | E-GEOD-45418 | biostudies-arrayexpress

The interactome of POU5F1 upstream enhancer in mouse embryonic stem cells revealed by 4C-Seq

Project description:We report the application of 4C-Seq technique for exploring POU5F1 enhancer interactome in mouse embryonic stem cells. A statistical model was built to identify enriched interacting regions from raw 4C data. The biological replicate data were compared to identify reproducible interacting regions. The interacting sites in the reproducible regions are enriched with active histone marks as well as transcription factors Oct4, Klf4, Esrrb, Tcfcp2i1 and Zfx that are critical for reprogramming and pluripotency. Generation of Illumina HiSeq2000 sequencing data using 4C-Seq protocol

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The interactome of POU5F1 upstream enhancer in mouse embryonic stem cells revealed by 4C-Seq

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Zygotic gene activatory network in zebrafish is globally controlled by Pou5f1 SoxB1 enhancers

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A high-throughput functional screening identifies non-canonical cis-regulatory sequences in the POU5F1 Locus

Project description:With less than 2% of the human genome coding for proteins, a major challenge confronting researchers today is to interpret the function of the non-coding DNA. Millions of regulatory sequences have been predicted in the human genome through the analyses of DNA methylation, chromatin modification, hypersensitivity to nucleases, and transcription factor binding, but few have been shown to regulate transcription in their native contexts. To begin to address this issue, we have developed a high throughput CRISPR/Cas9-based genome-editing strategy and used it to interrogate 174 candidate regulatory sequences within the 1Mbp POU5F1 locus in the human ES cells. We identified two classical regulatory elements - including a promoter and a proximal enhancer - that are essential for POU5F1 transcription in the ES cells. Unexpectedly, we also discovered a new class of cis elements that contribute to POU5F1 transcription in an unusual way: disruption of such sequences led to a temporary loss of POU5F1 transcription that is fully restored after a few rounds of cell division. These results demonstrate the utility of a high throughput screening for functional characterization of non-coding DNA, and reveal a previously unrecognized layer of gene regulation in human cells.

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POU5F1 induces cellular heterogeneity in colorectal cancer

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