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Mus musculus

ABSTRACT: Genome-wide analysis of RXRa binding in mouse liver chromatin with ChIP-SEQ.

PROVIDER: PRJNA125865 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR042731.fastq.gz	Fastqsanger.gz
	SRR042732.fastq.gz	Fastqsanger.gz
	SRR042733.fastq.gz	Fastqsanger.gz
	SRR042734.fastq.gz	Fastqsanger.gz
	SRR042735.fastq.gz	Fastqsanger.gz

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Genome-wide analysis of RXRa binding in mouse liver chromatin with ChIP-SEQ.

Project description:For the genome-wide analysis using ChIP-Seq on mouse liver cells, a full accounting of all RXRÎ± binding sites and of RXRa related gene regulations is expected to address the main knowledge gap around RXRÎ±. Liver tissue of wild type and hs-RXRa-del-exon4-/- mice, male and female for each genotype have been ChIP-Seq'ed for RXRa and Pol2.

2014-04-01 | E-GEOD-21696 | biostudies-arrayexpress

Role of Retinoids x Receptor in Mouse Liver

Project description:Genome-wide binding of Retinoids x Receptor in mouse liver was described Using ChIP-Seq data to clarify the role of RXRa in liver

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Genome-wide analysis of RXRa binding in mouse liver chromatin with ChIP-SEQ.

2014-04-01 | GSE21696 | GEO

Mus musculus

Project description:ChIP-seq analysis of genome wide Brg1 binding in mouse primary keratinocytes

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FXR and RXRA binding in mouse liver

Project description:FXR and RXRA binding in mouse liver

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Dissecting the retinoid-induced differentiation of F9 embryonal stem cells by integrative genomics [ChIP-seq]

Project description:Retinoic acid (RA) triggers physiological processes by activating heterodimeric transcription factors comprising retinoic acid (RARa,b,g) and retinoid X (RXRa,b,g) receptors. How a single signal induces highly complex temporally controlled networks that ultimately orchestrate physiological processes is unclear. Using an RA-inducible differentiation model we defined the temporal changes in the genome-wide binding patterns of RARg and RXRa and correlated them with transcription regulation. Unexpectedly, both receptors displayed a highly dynamic binding, with different RXRa heterodimers targeting identical loci. Comparison of RARg and RXRa co-binding at RA-regulated genes identified putative RXRa-RARg target genes that were validated with subtype-selective agonists. Gene regulatory decisions during differentiation were inferred from transcription factor target gene information and temporal gene expression. This analysis revealed 6 distinct co-expression paths of which RXRa-RARg is associated with transcription activation, while Sox2 and Egr1 were predicted to regulate repression. Finally, RXRa-RARg regulatory networks were reconstructed through integration of functional co-citations. Our analysis provides a dynamic view of RA signalling during cell differentiation, reveals RA heterodimer dynamics and promiscuity, and predicts decisions that diversify the RA signal into distinct gene-regulatory programs. RXRa; RARg and RNA Polymerase II chromatin binding has been assessed at five time points; in addition an input control for F9 cells as well as a RXRa ChIP-seq assay from a rxra-/- ko strain has been performed.

2011-10-11 | E-GEOD-30538 | biostudies-arrayexpress

Mus musculus

Project description:Genome-wide analysis of Nrdc-binding sites by ChIP-seq in mouse embryonic fibroblasts

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Mus musculus

Project description:Genome-wide analysis of p53 binding by ChIP-seq

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Mus musculus

Project description:Multiorgan PIXUL-ChIP-seq analysis of genome-wide RNA polymerase II (Pol II) binding in mouse heart, kidney, liver and lung

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Bidirectional Introgression between Mus musculus domesticus and Mus spretus.

Project description:Introgressed variants from other species can be an important source of genetic variation because they may arise rapidly, can include multiple mutations on a single haplotype, and have often been pretested by selection in the species of origin. Although introgressed alleles are generally deleterious, several studies have reported introgression as the source of adaptive alleles-including the rodenticide-resistant variant of Vkorc1 that introgressed from Mus spretus into European populations of Mus musculus domesticus. Here, we conducted bidirectional genome scans to characterize introgressed regions into one wild population of M. spretus from Spain and three wild populations of M. m. domesticus from France, Germany, and Iran. Despite the fact that these species show considerable intrinsic postzygotic reproductive isolation, introgression was observed in all individuals, including in the M. musculus reference genome (GRCm38). Mus spretus individuals had a greater proportion of introgression compared with M. m. domesticus, and within M. m. domesticus, the proportion of introgression decreased with geographic distance from the area of sympatry. Introgression was observed on all autosomes for both species, but not on the X-chromosome in M. m. domesticus, consistent with known X-linked hybrid sterility and inviability genes that have been mapped to the M. spretus X-chromosome. Tract lengths were generally short with a few outliers of up to 2.7 Mb. Interestingly, the longest introgressed tracts were in olfactory receptor regions, and introgressed tracts were significantly enriched for olfactory receptor genes in both species, suggesting that introgression may be a source of functional novelty even between species with high barriers to gene flow.

| S-EPMC8784167 | biostudies-literature

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