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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Dec 15, 2023 |
| Title |
XIST directly regulates X-linked and autosomal genes in naïve human pluripotent cells [RAP-seq_mouse] |
| Organism |
Mus musculus |
| Experiment type |
Other
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| Summary |
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.
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| Overall design |
We examined the genomic localization of the XIST lncRNA using RNA Antisense Purification (RAP) in multiple cells: female mouse D2 and D4 of EpiLCs differentiation and female and male MEFs
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| Contributor(s) |
Dror I, Tan S, Plath K |
| Citation(s) |
38181737 |
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| Submission date |
Aug 22, 2023 |
| Last update date |
Mar 13, 2024 |
| Contact name |
Kathrin Plath |
| Organization name |
UCLA
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| Street address |
BOX 951737, 36-133 CHS
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| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90095-1737 |
| Country |
USA |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (11)
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| GSM7729028 |
Mouse Female Day 2 EpiLC R1 – XIST Pulldown |
| GSM7729029 |
Mouse Female Day 4 EpiLC R1 – XIST Pulldown |
| GSM7729030 |
Mouse Female EpiLC R1 – Input |
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| This SubSeries is part of SuperSeries: |
| GSE241444 |
XIST directly regulates X-linked and autosomal genes in naïve human pluripotent cells |
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| Relations |
| BioProject |
PRJNA1008165 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE241440_RAW.tar |
4.2 Mb |
(http)(custom) |
TAR (of BEDGRAPH, BROADPEAK) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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