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Cellular reprogramming is driven by widespread rewiring of promote-enhancer interactions

ABSTRACT: Cellular reprogramming is driven by widespread rewiring of promote-enhancer interactions

PROVIDER: PRJNA915937 | ENA |

REPOSITORIES: ENA

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Cellular reprogramming is driven by widespread rewiring of promote-enhancer interactions

Project description:Interactions between promoters and cis-regulatory elements, such as enhancers, play a role in gene regulation. However, the role of three-dimensional (3D) chromatin structure in orchestrating changes in transcription during cell fate transition is not fully understood. Here, we performed integrated analyses of chromosomal architecture, epigenetics and gene expression using Hi-C, promoter Capture Hi-C (PCHi-C), ChIP sequencing, and RNA sequencing during trans-differentiation of preB cells into macrophages with a β-estradiol inducible CEBPα-ER transgene. Within 1 hour of β-estradiol induction, CEBPα translocates from the cytoplasm to the nucleus and binds to thousands of promoters and putative regulatory elements, resulting in downregulation of preB cell specific genes and induction of macrophage specific genes. Hi-C results were remarkably consistent throughout transinduction, revealing only a small number of TAD boundary location changes, and A/B compartment switches despite changes in expression of thousands of genes. PCHi-C reveals changes in promoter-anchored loops with decrease in interactions parallel with their decreased expression, and new promoter-anchored interactions with macrophage specific genes concordant with their increased expression.Overall, our data demonstrate that CEBPα-induced transinduction involves few changes in genome architecture that are detectable by Hi-C, and widespread reorganization of thousands of promoter anchored loops with PCHi-C that drive changes in cell identity.

2023-11-03 | GSE221737 | GEO

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MAFG-driven astrocytes promote CNS inflammation

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Widespread contribution of transposable elements to the rewiring of mammalian 3D genomes

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| PRJNA922468 | ENA

P-bodies regulate transcriptional rewiring to promote DNA replication stress resistance

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Transcriptional adaptation and enhancer rewiring promote metabolic resistance in BRAFmutated multiple myeloma

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Fusion oncogene rewiring of Super Enhancers can promote leukemia through cooperative gene induction

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Transcriptional adaptation and enhancer rewiring promote metabolic resistance in BRAFmutated multiple myeloma (scRNA-seq)

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Transcriptional adaptation and enhancer rewiring promote metabolic resistance in BRAFmutated multiple myeloma (ChIP-seq)

Project description:Transcriptional adaptation and enhancer rewiring promote metabolic resistance in BRAFmutated multiple myeloma (ChIP-seq)

| PRJNA714651 | ENA

Transcriptional adaptation and enhancer rewiring promote metabolic resistance in BRAFmutated multiple myeloma (bulkRNA-seq)

Project description:Transcriptional adaptation and enhancer rewiring promote metabolic resistance in BRAFmutated multiple myeloma (bulkRNA-seq)

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