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Epigenetically-controlled tumor antigens derived from splice junctions between exons and transposable elements [ChIP-seq]

ABSTRACT: Epigenetically-controlled tumor antigens derived from splice junctions between exons and transposable elements [ChIP-seq]

PROVIDER: PRJNA860111 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR20309435_1.fastq.gz	Fastqsanger.gz
	SRR20309435_2.fastq.gz	Fastqsanger.gz
	SRR20309436_1.fastq.gz	Fastqsanger.gz
	SRR20309436_2.fastq.gz	Fastqsanger.gz
	SRR20309437_1.fastq.gz	Fastqsanger.gz

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Epigenetically-controlled tumor antigens derived from splice junctions between exons and transposable elements

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Epigenetically-controlled tumor antigens derived from splice junctions between exons and transposable elements [RNA-seq]

Project description:To study the expression of junctions between exons and transposable elements (TEs), we generated paired-end RNAseq from various mouse tumor cell lines, with several biological replicates (cultures from different days). To analyse regulation of JET expression, we generated Setdb1-deficient B16F10 and B16OVA cells, using lentivirus-based CRISPR/Cas9. Ctrl and KO cells lines were used to generate paired-end RNAseq, with several biological replicates (cultures on different days). We generated paired-end RNAseq from healthy female mouse tissues, to compare JET expression in healthy and tumor cells.

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Non-canonical splicing junctions between exons and transposable elements represent a source of immunogenic recurrent neo-antigens in cancer patients

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Epigenetically-controlled tumor antigens derived from splice junctions between exons and transposable elements

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Back-splice junctions of KSHV circular RNAs

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