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Selective reactivation of human X-linked genes in female fibroblasts reprogrammed by cell fusion

ABSTRACT: Selective reactivation of human X-linked genes in female fibroblasts reprogrammed by cell fusion

PROVIDER: PRJNA258003 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR1542940_1.fastq.gz	Fastqsanger.gz
	SRR1542940_2.fastq.gz	Fastqsanger.gz
	SRR1542950_1.fastq.gz	Fastqsanger.gz
	SRR1542950_2.fastq.gz	Fastqsanger.gz
	SRR1542941_1.fastq.gz	Fastqsanger.gz

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Selective reactivation of human X-linked genes in female fibroblasts reprogrammed by cell fusion

Project description:In female mammals, one of the two X chromosomes is silenced as pluripotent cells differentiate. This process, termed X-inactivation, is random and results in mosaic expression of many X-linked genes in female tissues. Although X-inactivation can be reversed in vitro by reprogramming, the extent varies according to species, operator and conditions. Here, we have reprogrammed cloned female human fibroblasts by fusing them with mouse ESCs and examined the kinetics of X-linked gene re-expression. Allele-specific RNA sequencing analysis was used to determine the expression from the inactive X chromosome. This study revealed that a subset of loci within domains prone to escape X-inactivation, or that showed variable expression between somatic clones, were consistently reactivated upon pluripotent reprogramming. This suggests that stochastic events may be stabilised by reprogramming, and conversely, that variable expression is predictive for Xi genes susceptible to re-activation.

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Cell fusion-mediated pluripotent reprogramming triggers ordered changes in chromatin and gene expression across the human inactive X chromosome

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Epstein-Barr virus reactivation induces divergent abortive, reprogrammed, and host shutoff states by lytic progression

Project description:Epstein-Barr virus reactivation induces divergent abortive, reprogrammed, and host shutoff states by lytic progression

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Cell fusion-mediated pluripotent reprogramming triggers ordered changes in chromatin and gene expression across the human inactive X chromosome

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Project description:To investigate the dynamics of X-chromosome reactivation, we differentiated mouse embryonic stem cells (ESCs) into neural precursor cells (NPCs) and later reprogrammed them into induced pluripotent stem cells (iPSCs). During the conversions of NPCs into iPSC, we assessed the kinetics of X-chromosome reactivation. We generated allele-specific RNA-seq datasets to assess gene reactivation dynamics, employed ATAC-seq to investigate chromatin opening dynamics and performed in situ Hi-C to explore dynamics of chromosome structure.

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Protemics of human cell during HHV-6A reactivation

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