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Xist upstream deletion leads to dysregulation of Xist and autosomal gene expression

ABSTRACT: Xist upstream deletion leads to dysregulation of Xist and autosomal gene expression

PROVIDER: PRJNA1029485 | ENA |

REPOSITORIES: ENA

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Xist upstream deletion impairs topological contacts of Xist locus and affects Xist coating/expression and autosomal gene expression [4C]

Project description:In this study, we have investigated the role of Xist upstream region located near the Xist-TAD boundary in maintenance of imprinted X-chromosome inactivation in extraembryonic endoderm stem cells (XEN). We found that deletion of Xist upstream region(~6Kb) leads to the alterations of Xist intra-TAD contacts and upregulate Xist expression. Moreover, it impaired the interactions of the Xist locus across X-chromosomes and autosomes. Moreover, Xist upstream deletion resulted dispersal of Xist coating and loss of accumulation of diffrent repressive chromatin marks on the inactive-X. Surprisingly there was no effect on inactive-X gene silencing, however, it affeted the autosomal gene expression.

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Xist upstream deletion impairs topological contacts of Xist locus and affects Xist coating/expression and autosomal gene expression [ChIP-Seq]

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Xist upstream deletion impairs topological contacts of Xist locus and affects Xist coating/expression and autosomal gene expression [RNA-Seq]

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Xist upstream deletion impairs topological contacts of Xist locus and affects Xist coating/expression and autosomal gene expression [4C]

Project description:Xist upstream deletion impairs topological contacts of Xist locus and affects Xist coating/expression and autosomal gene expression [4C]

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Xist upstream deletion impairs topological contacts of Xist locus and affects Xist coating/expression and autosomal gene expression [ChIP-Seq]

Project description:Xist upstream deletion impairs topological contacts of Xist locus and affects Xist coating/expression and autosomal gene expression [ChIP-Seq]

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Xist upstream deletion impairs topological contacts of Xist locus and affects Xist coating/expression and autosomal gene expression [RNA-Seq]

Project description:Xist upstream deletion impairs topological contacts of Xist locus and affects Xist coating/expression and autosomal gene expression [RNA-Seq]

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Xist upstream deletion leads to dysregulation of Xist and autosomal gene expression

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

2025-07-05 | GSE245643 | GEO

XIST directly regulates X-linked and autosomal genes in naïve human pluripotent cells [CUT&Tag]

Project description:X-chromosome inactivation (XCI) serves as a paradigm for RNA-mediated regulation of gene expression, wherein the long non-coding RNA XIST spreads across the X-chromosome in cis to mediate chromosome-wide gene silencing. In female naïve human pluripotent stem cells (hPSCs), XIST is in a dispersed configuration and XCI does not occur, raising questions about XIST’s function. We found that XIST spreads across the X-chromosome and induces dampening of X-linked gene expression in naïve hPSCs. Surprisingly, XIST also targets specific autosomal regions, where it induces repressive chromatin changes and gene expression dampening. Thereby, XIST equalizes X-linked gene dosage between male and female cells while inducing differences on autosomes. The dispersed Xist configuration and autosomal localization also occur transiently during XCI initiation in mouse PSCs. Together, our study identifies XIST as the regulator of X-chromosome dampening, uncovers an evolutionarily conserved trans-acting role of XIST/Xist, and reveals a correlation between XIST/Xist dispersal and autosomal targeting. Surprisingly, XIST also targets specific autosomal regions, where it induces repressive chromatin changes and gene expression dampening. Thereby, XIST equalizes X-linked gene dosage between male and female cells while inducing differences on autosomes. Dispersed Xist configuration and autosomal localization also occur transiently during XCI initiation in mouse PSCs. Together, our results identify XIST as the regulator of X-chromosome dampening, uncover an evolutionarily conserved trans-acting role of XIST/Xist, and reveal a correlation between XIST/Xist dispersal and autosomal targeting.

2023-12-15 | GSE241443 | GEO

XIST directly regulates X-linked and autosomal genes in naïve human pluripotent cells [RNA-seq]

2023-12-15 | GSE241438 | GEO

XIST directly regulates X-linked and autosomal genes in naïve human pluripotent cells [ChIP-seq]

2023-12-15 | GSE241442 | GEO