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Histone acetylation dynamics modulate chromatin conformation and allele-specific interactions at oncogenic loci (ChIPSeq)

ABSTRACT: Histone acetylation dynamics modulate chromatin conformation and allele-specific interactions at oncogenic loci (ChIPSeq)

PROVIDER: PRJNA707507 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR13890616_1.fastq.gz	Fastqsanger.gz
	SRR13890616_2.fastq.gz	Fastqsanger.gz
	SRR13890617_1.fastq.gz	Fastqsanger.gz
	SRR13890617_2.fastq.gz	Fastqsanger.gz
	SRR13890618_1.fastq.gz	Fastqsanger.gz

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Histone acetylation dynamics modulate chromatin conformation and allele-specific interactions at oncogenic loci (ChIPSeq)

Project description:In cancer cells, enhancer hijacking mediated by chromosomal alterations and/or increase of histone H3 lysine 27 acetylation (H3K27ac) can support oncogene expression. However, how the chromatin conformation of enhancer-promoter interactions is affected by these events is unclear. Here, by comparing chromatin structure and H3K27ac levels in normal and lymphoma B-cells, we show that enhancer-promoter interacting regions assume different conformations according to the local abundance of H3K27ac. Genetic or pharmacologic depletion of H3K27ac decreases the frequency and the spreading of these interactions, altering oncogene expression. Moreover, enhancer hijacking mediated by chromosomal translocations influences the epigenetic status of the regions flanking the breakpoint, prompting the formation of distinct intra-chromosomal interactions in the two homologous chromosomes. These interactions are accompanied by allele-specific gene expression changes. Overall, our work indicates that H3K27ac dynamics modulate interaction frequency between regulatory regions and can lead to allele-specific chromatin configurations to sustain oncogene expression.

2021-03-09 | GSE168472 | GEO

Histone acetylation dynamics modulate chromatin conformation and allele-specific interactions at oncogenic loci.

Project description:Histone acetylation dynamics modulate chromatin conformation and allele-specific interactions at oncogenic loci.

| PRJNA707503 | ENA

Histone acetylation dynamics modulate chromatin conformation and allele-specific interactions at oncogenic loci (RNASeq)

2021-03-09 | GSE168471 | GEO

Histone acetylation dynamics modulate chromatin conformation and allele-specific interactions at oncogenic loci (Hi-C)

2021-03-09 | GSE168470 | GEO

Histone acetylation dynamics modulate chromatin conformation and allele-specific interactions at oncogenic loci (RNASeq)

Project description:Histone acetylation dynamics modulate chromatin conformation and allele-specific interactions at oncogenic loci (RNASeq)

| PRJNA707508 | ENA

Histone acetylation dynamics modulate chromatin conformation and allele-specific interactions at oncogenic loci (Hi-C)

Project description:Histone acetylation dynamics modulate chromatin conformation and allele-specific interactions at oncogenic loci (Hi-C)

| PRJNA707506 | ENA

Histone acetylation dynamics modulate chromatin conformation and allele-specific interactions at oncogenic loci.

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

2021-03-09 | GSE168474 | GEO

Transient promoter interactions modulate developmental gene activation [ChIPseq]

Project description:Transient promoter interactions modulate developmental gene activation [ChIPseq]

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DNA G-quadruplexes modulate highly transcribed genes in human chromatin [ChIPseq]

Project description:DNA G-quadruplexes modulate highly transcribed genes in human chromatin [ChIPseq]

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Evf2 ultraconserved enhancer long non-coding RNA (UCE lncRNA)-dependent UCE interactions (4Cseq), and cohesin binding, histone methylation and acetylation (ChIPseq) in mouse E13.5 ganglionic eminences

Project description:In this study we used mice lacking Evf2 (Evf2TS/TS) and mice expressing a truncated form of Evf2 (Evf1TS/TS) to determine UCE lncRNA epigenetic and chromosome toplogical control. We used 4Cseq to investigate how Evf2 regulates UCE interactions along chromosome 6 (where Evf2 is expressed). We used ChIpseq to compare histone methylation profiles from Evf2TS/TS and Evf1TS/TS. In addition, we used ChIPseq to determine Evf2-depedent regulation of cohesin subunit binding (SMC1 and SMC3) and histone H3K27acetylation. Together, these data support that Evf2 UCE lncRNA controls chromosome topology over multi-megabse distances, through cohesin binding and effects on histone methylation and acetylation. Also included is the ChIPseq profile of Dlx binding sites in SW (outbred strain of mice) from E13.5 GE.

2018-08-23 | GSE117184 | GEO

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