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Long-distance association of topological boundaries through nuclear condensates (PRO-Seq)

ABSTRACT: Long-distance association of topological boundaries through nuclear condensates (PRO-Seq)

PROVIDER: PRJNA801257 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR17786619.fastq.gz	Fastqsanger.gz
	SRR17786620.fastq.gz	Fastqsanger.gz
	SRR17786621.fastq.gz	Fastqsanger.gz
	SRR17786622.fastq.gz	Fastqsanger.gz

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Similar Datasets

Long-distance association of topological boundaries through nuclear condensates (PRO-Seq)

Project description:Chromatin is partitioned into distinct topological domains in an activity-dependent manner, with topological boundaries limiting the interaction between adjacent domains. Recent studies support the concept that several well-established nuclear compartments are assembled as ribonucleoprotein condensates. Here we ask whether the physical processes driving the assembly of the nuclear condensates play any role in three-dimensional chromatin architecture. We report that the insulation of approximately 20% of topological boundaries in human embryonic stem cells is substantially weakened following brief treatment with 1,6-hexanediol, a chemical known to disrupt several nuclear condensates. The disrupted boundaries are characterized by a high level of transcription, striking spatial clustering, and the augmented presence of transcription units widely expressed in diverse cell types. These topological boundary regions tend to be spatially associated, even inter-chromosomally, and segregate with nuclear speckles. These observations reveal a previously unappreciated mode of genome organization mediated by conserved boundary elements harboring widely-expressed transcription units and associated transcriptional condensates.

2022-06-15 | GSE195563 | GEO

Long-distance association of topological boundaries through nuclear condensates

Project description:Long-distance association of topological boundaries through nuclear condensates

| PRJNA801249 | ENA

Long-distance association of topological boundaries through nuclear condensates (Hi-C)

2022-06-15 | GSE195565 | GEO

Long-distance association of topological boundaries through nuclear condensates (GRO-Seq)

2022-06-15 | GSE195562 | GEO

Long-distance association of topological boundaries through nuclear condensates (ChIP-Seq)

2022-06-15 | GSE195561 | GEO

Long-distance association of topological boundaries through nuclear condensates (GRO-Seq)

Project description:Long-distance association of topological boundaries through nuclear condensates (GRO-Seq)

| PRJNA801254 | ENA

Long-distance association of topological boundaries through nuclear condensates (ChIP-Seq)

Project description:Long-distance association of topological boundaries through nuclear condensates (ChIP-Seq)

| PRJNA801255 | ENA

Long-distance association of topological boundaries through nuclear condensates (Hi-C)

Project description:Long-distance association of topological boundaries through nuclear condensates (Hi-C)

| PRJNA801256 | ENA

Long-distance association of topological boundaries through nuclear condensates

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

2022-06-13 | GSE195566 | GEO

Molecular Chaperone RUVBL2 Activates Oncogenes by Modulation of Transcriptional Condensates [PRO-Seq]

Project description:Transcription regulators and apparatuses compartmentalize into transcriptional condensates in part through molecular interactions among intrinsically disordered regions. To better understand how these fundamental condensates are regulated, we performed time-series analyses of transcriptome, genome and imaging to show that the previously characterized molecular chaperone RUVBL2 assembles Pol II condensates by its ATPase activity and prevalently interacting with diverse oncogenic transcription factors at promoters, thereby maintaining active transcription in mammalian cells. Besides, RUVBL2 is overexpressed in various cancers, has higher expression levels and preferential chromatin binding compared with RUVBL1. Remarkably, acute protein degradation and chemical perturbations of RUVBL2 with the nucleoside compound cordycepin result in the repression of oncogenes in embryonic stem cells and breast cancer cells, respectively. Our results suggest that molecular chaperone RUVBL2 safeguards the hemostasis of transcriptional condensates at promoters. Thus, pharmacological perturbations of RUVBL2 is a promising strategy to restore these condensates in breast cancers.

2022-08-30 | GSE160696 | GEO

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