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CTCF tunes gene expression in a loop-dependent and -independent manner [ATAC-Seq]

ABSTRACT: This study was aimed to investigate the influence of CTCF degradation on chromatin accessibility, and discovered that CTCF loss reduced chromatin accessbility

ORGANISM(S): Mus musculus

PROVIDER: GSE274789 | GEO | 2026/05/06

REPOSITORIES: GEO

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CTCF tunes gene expression in a loop-dependent and -independent manner [MNase HiChIP]

Project description:CTCF, RAD21 and H3K27ac MNase HiChIP experiments were performed to capture their mediated chromatin interactions. Our data showed that the change in H3K27ac mediated chromatin interactions was minimal upon acute CTCF loss.

2026-05-06 | GSE274794 | GEO

CTCF tunes gene expression in a loop-dependent and -independent manner [Hi-C]

Project description:BL-Hi-C was performed in CTCF AID cells with or without overexpression of wild-type or Y226A/F228A double mutant CTCF to verify that mutant CTCF cannot mediate significant chromatin loops.

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CTCF tunes gene expression in a loop-dependent and -independent manner [ChIP-Seq]

Project description:ChIP experiments were performed to investigate the changes of CTCF and several chromatin remodeling subunits following CTCF degradation in mouse embryonic stem cells and found that acute CTCF degradation reduced the binding of CHD4 and CHD8.

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CTCF tunes gene expression in a loop-dependent and -independent manner [MNase-based 4C-seq]

Project description:By designing specific primers targeting different genomic loci, M4C was used to capture chromatin interactions mediated by these loci and to reveal the changes in chromatin interactions upon acute CTCF loss.

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CTCF tunes gene expression in a loop-dependent and -independent manner [RNA-seq]

Project description:In this study, we aimed to investigate changes in gene expression following CTCF degradation, and found that CTCF primarily regulated gene expression in a loop-independent manner when it bound at gene promoters.

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Project description:By using TT-seq, we investigated whether CTCF regulated gene expression by repressing antisense transcription. Our results showed that only few genes were regulated in this way, and CTCF might exert its loop-independent regulatory role through other mechanisms.

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CTCF tunes gene expression in a loop-dependent and -independent manner [ATAC-Seq]

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CTCF tunes gene expression in a loop-dependent and -independent manner

Project description:This SuperSeries is composed of the SubSeries listed below.

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CTCF tunes gene expression in a loop-dependent and -independent manner [ChIP-Seq]

Project description:CTCF tunes gene expression in a loop-dependent and -independent manner [ChIP-Seq]