Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Genome-wide distribution of histones modifications in mouse ESC Rif1+/+ and Rif1-/-

ABSTRACT: Genome-wide distribution of histones modifications in mouse ESC Rif1+/+ and Rif1-/-

PROVIDER: PRJEB9864 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR961006_1.fastq.gz	Fastqsanger.gz
	ERR961006_2.fastq.gz	Fastqsanger.gz
	ERR961007_1.fastq.gz	Fastqsanger.gz
	ERR961007_2.fastq.gz	Fastqsanger.gz
	ERR961008_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 40

Similar Datasets

Genome-wide distribution of histones modifications in mouse ESC Rif1+/+ and Rif1-/-

Project description:Analyzed histones modifications: H3K9 H3K4 H3K27 H4K20

2015-12-24 | E-MTAB-3743 | biostudies-arrayexpress

Genome-wide maps of H3K9me3 in control ESCs and Rif1 knockdown ESC.

Project description:We found that Rif1 depletion leads to reduced H3K9me3 levels at 1/3 of the H3K9me3-enriched genomic regions (H3K9me3 peaks), and that reduced H3K9me3 de-represses Zscan4 and other genes that are specific to the 2-Cell stage embryo. Examination of H3K9me3 histone modifications in 2 cell types.

2014-02-13 | E-GEOD-54947 | biostudies-arrayexpress

Gene expression of Rif1-depleted ES cells

Project description:Rif1 depletion in mouse ES cells increases the populations derepressing 2-cell zygote-specific genes including Zscan4. We investigated the chromatin structural change in the Zscan4 gene loci, and found that this region was deprived of major histone modifications except for moderately coded by H3 lysine9 trimethylation. Rif1 depletion caused no significant alteration in DNA methylation and histone modifications including common active marks, but only a notable increase in H3K27Ac active mark in gene bodies and neighboring regions, indicating that atypical broad enhancer-like chromatin with semi-silent property has been emerged in Zscan4 gene loci.<BR>In this study, we used microarrays to present the global changes in gene expression caused by transient depletion of Rif1.

2020-09-19 | GSE158220 | GEO

Genome-wide maps of H3K9me3 in control ESCs and Rif1 knockdown ESC.

2014-02-13 | GSE54947 | GEO

Mitotic post-translational modifications of histones promote chromatin compaction in vitro

Project description:As histones undergo major changes in their post-translational modifications during mitotic entry, we speculated that the spectrum of cell cycle-specific histone modifications might contribute to chromosome compaction during mitosis. To test this hypothesis, we isolated core histones from interphase and mitotic cells and reconstituted chromatin with them. We used mass spectrometry to show that key post-translational modifications remained intact during our isolation procedure.

2018-10-24 | PXD007116 | Pride

ChIP-Seq analysis of Myc-tagged budding yeast Rif1

Project description:Genomic locations of Myc-tagged budding yeast Rif1 (including wilt-type and designer mutants) were analysed by ChIP-Seq. Mutants tested were rif1-7A and rif1-7E, in which Ser/Thr residues in the cluster of SQ/TQ sites were mutated to Ala or Glu, respectively. The performance of RIF1-9V5 was also tested.

2023-11-19 | E-MTAB-13451 | biostudies-arrayexpress

ChIP-Seq analysis of V5-tagged budding yeast Rif1

Project description:Genomic locations of V5-tagged budding yeast Rif1 (including wilt-type and designer mutants) were analysed by ChIP-Seq. Mutants tested were rif1-7A and rif1-7E, in which Ser/Thr residues in the cluster of SQ/TQ sites were mutated to Ala or Glu, respectively. We also tested tested rif1-∆594, in which the C-terminal 594 amino acids were deleted.

2023-11-19 | E-MTAB-13452 | biostudies-arrayexpress

The role of Rif1 in ES cells

Project description:Purpose:The goals of this study are to understand the mechanisms underlying reduced self-renewal and loss of pluripotency by depletion of Rif1. Methods: We performed global gene expression analysis of Rif1 knockdown ES cell lines using Affymetrix 430 2.0 arrays, compared to shRNA controls. J1 ES cells were transfected with Control shRNA and Rif1 shRNA using lipofectamine 2000. Forty-eight hours after transfection, cells were collected for global gene expression analysis using Affymetrix mouse genome 430 2.0 array. Stable F1 Rif1 knockdown ES cells at passage 16 were used for long-term gene expression chip microarray using Affymetrix mouse genome 430 2.0 array.

2014-02-19 | E-GEOD-55129 | biostudies-arrayexpress

Rif1 inhibits replication fork progression and controls copy number in Drosophila.

Project description:Control of DNA copy number is essential to maintain genome stability and ensure proper cell and tissue function. In Drosophila, the SNF2-domain-containing SUUR protein inhibits replication fork progression within specific regions of the genome to promote DNA underreplication. While dissecting the function of SUUR’s SNF2 domain, we identified a physical interaction between SUUR and Rif1. Rif1 has many roles in DNA metabolism and regulates the replication timing program. We demonstrate that repression of DNA replication is dependent on Rif1. Rif1 localizes to active replication forks in an SUUR-dependent manner and directly regulates replication fork progression. Importantly, SUUR associates with replication forks in the absence of Rif1, indicating that Rif1 acts downstream of SUUR to inhibit fork progression. Our findings uncover an unrecognized function of the Rif1 protein as a direct regulator of replication fork progression suggesting developmental regulation of Rif1 activity.

2018-10-15 | GSE114370 | GEO

The role of Rif1 in ES cells

2014-02-19 | GSE55129 | GEO