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MRNA-seq of iXist-ChrXDom mESCs

ABSTRACT: mRNA-seq of iXist-ChrXDom mESCs

PROVIDER: PRJNA771076 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR16319489_1.fastq.gz	Fastqsanger.gz
	SRR16319489_2.fastq.gz	Fastqsanger.gz
	SRR16319490_1.fastq.gz	Fastqsanger.gz
	SRR16319490_2.fastq.gz	Fastqsanger.gz
	SRR16319491_1.fastq.gz	Fastqsanger.gz

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YY1 ChIP-seq (endogenous YY1 Ab) in non-induced iXist-ChrX mESCs

Project description:YY1 ChIP-seq (endogenous YY1 Ab) in non-induced iXist-ChrX mESCs

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YY1 ChIP-seq (endogenous YY1 Ab) in non-induced iXist-ChrX mESCs

Project description:X chromosome inactivation (XCI) in mammals is mediated by Xist RNA which functions in cis to silence genes on a single X chromosome in XX female cells, thereby equalising levels of X-linked gene expression relative to XY males. XCI progresses over a period of several days, with some X-linked genes silencing faster than others. Chromosomal location of a gene is an important determinant of silencing rate, but uncharacterised gene-intrinsic features also mediate resistance or susceptibility to silencing. In this study, we examine mouse embryonic stem cell lines with an inducible Xist allele (iXist-ChrX mESCs) and integrate allele-specific data of gene silencing and decreasing inactive X (Xi) chromatin accessibility over time-courses of Xist induction with cellular differentiation. Our analysis reveals that motifs bound by the transcription factor YY1 are associated with persistently accessible regulatory elements, including many promoters and enhancers of slow-silencing genes. We further show that YY1 is evicted relatively slowly from target sites on Xi, and that silencing of X-linked genes is increased upon YY1 degradation. Together our results suggest that YY1 acts as barrier to Xist-mediated silencing until late stages of the XCI process.

2024-02-28 | GSE240682 | GEO

OCT4 and YY1 ChIP-seq in iXist-ChrX mESCs (d0 and d6 Xist induction)

Project description:OCT4 and YY1 ChIP-seq in iXist-ChrX mESCs (d0 and d6 Xist induction)

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OCT4 and YY1 ChIP-seq in iXist-ChrX mESCs (d0 and d6 Xist induction)

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Chromatin RNA-seq of Xist-mediated silencing upon YY1 degradation in iXist-ChrX YY1-FKBP12-T7 mESCs

Project description:Chromatin RNA-seq of Xist-mediated silencing upon YY1 degradation in iXist-ChrX YY1-FKBP12-T7 mESCs

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Chromatin RNA-seq of Xist-mediated silencing upon YY1 degradation in iXist-ChrX YY1-FKBP12-T7 mESCs

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mRNA-seq of iXist-ChrXDom mESCs

Project description:X chromosome inactivation (XCI) is mediated by the non-coding RNA Xist which directs chromatin modification and gene silencing in cis. The RNA binding protein SPEN and associated corepressors have a central role in Xist-mediated gene silencing. Other silencing factors, notably the Polycomb system, have been reported to function downstream of SPEN. Making use of a SPEN separation-of-function mutation we show that SPEN and Polycomb pathways in fact function in parallel to establish gene silencing. Additionally, we find that differentiation-dependent recruitment of the chromosomal protein SmcHD1 is required for silencing many X-linked genes.

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mRNA-seq of H3.3 mutant (K9A K27A K79A) and control mESCs

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Bcl3 target genes in mESCs

Project description:Bcl3 is expressed in mESCs. ChIP-seq was used to identify its binding pattern and target genes. ChIP of Bcl3 in mESCs under conventional culture condition

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Sox2 ChIP-seq in mESCs and neurons

Project description:Mouse WT129 ESCs and differentiated from them within 12 days glutamatergic neurons were used for the ChiP-seq experiment with an antibody against Sox2 protein. ES stands for mESCs, NP for neurons, inputs are provided for both cell types.

2020-05-21 | E-MTAB-8196 | biostudies-arrayexpress

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