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Isolation and genome-wide characterization of cellular DNA:RNA triplex structures

ABSTRACT: Isolation and genome-wide characterization of cellular DNA:RNA triplex structures

PROVIDER: PRJNA494705 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR7965670.fastq.gz	Fastqsanger.gz
	SRR7965680.fastq.gz	Fastqsanger.gz
	SRR7965690.fastq.gz	Fastqsanger.gz
	SRR7965700.fastq.gz	Fastqsanger.gz
	SRR7965671.fastq.gz	Fastqsanger.gz

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Isolation and genome-wide characterization of cellular DNA:RNA triplex structures I

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Project description:RNA can directly bind to purine-rich DNA via Hoogsteen base pairing, forming a DNA:RNA triple helical structure that anchors the RNA to specific sequences and allows guiding of transcription regulators to distinct genomic loci. To unravel the prevalence of DNA:RNA triplexes in living cells, we have established a fast and cost-effective method that allows genome-wide mapping of DNA:RNA triplex interactions. In contrast to previous approaches applied for the identification of chromatin-associated RNAs, this method uses protein-free nucleic acids isolated from chromatin. High-throughput sequencing and computational analysis of DNA-associated RNA revealed a large set of RNAs which originate from non-coding and coding loci, including repeat elements. Combined analysis of DNA-associated RNA and RNA-associated DNA identified genomic DNA:RNA triplex structures. The results suggest that triplex formation is a general mechanism of RNA-mediated target-site recognition, which has major impact on biological functions.

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Isolation and genome-wide characterization of cellular DNA:RNA triplex structures.

Project description:RNA can directly bind to purine-rich DNA via Hoogsteen base pairing, forming a DNA:RNA triple helical structure that anchors the RNA to specific sequences and allows guiding of transcription regulators to distinct genomic loci. To unravel the prevalence of DNA:RNA triplexes in living cells, we have established a fast and cost-effective method that allows genome-wide mapping of DNA:RNA triplex interactions. In contrast to previous approaches applied for the identification of chromatin-associated RNAs, this method uses protein-free nucleic acids isolated from chromatin. High-throughput sequencing and computational analysis of DNA-associated RNA revealed a large set of RNAs which originate from non-coding and coding loci, including super-enhancers and repeat elements. Combined analysis of DNA-associated RNA and RNA-associated DNA identified genomic DNA:RNA triplex structures. The results suggest that triplex formation is a general mechanism of RNA-mediated target-site recognition, which has major impact on biological functions.

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Isolation and genome-wide characterization of cellular DNA:RNA triplex structures

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

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