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Actively translating transcriptome (Ribotag) profiling of mouse retinal endothelial cells during postnatal development

ABSTRACT: Actively translating transcriptome (Ribotag) profiling of mouse retinal endothelial cells during postnatal development

PROVIDER: PRJEB15386 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR1629540_1.fastq.gz	Fastqsanger.gz
	ERR1629540_2.fastq.gz	Fastqsanger.gz
	ERR1629550_1.fastq.gz	Fastqsanger.gz
	ERR1629550_2.fastq.gz	Fastqsanger.gz
	ERR1629541_1.fastq.gz	Fastqsanger.gz

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Actively translating transcriptome (Ribotag) profiling of mouse retinal endothelial cells during postnatal development

2020-08-28 | E-MTAB-5087 | biostudies-arrayexpress

Actively translating transcriptome (Ribotag) profiling of mouse retinal endothelial cells during postnatal development

Project description:Angiogenesis, a process mediating the expansion of vascular beds in many physiological and pathological settings, requires dynamic changes in endothelial cell (EC) behavior. The molecular mechanisms governing EC activity during different phases of vascular growth, remodeling, maturation, and quiescence remain elusive. Here, we have employed actively translating transcriptome analysis of mouse retinal ECs for the characterization of dynamic gene expression changes during postnatal development and the identification of critical angiogenic factors. In silico computational analyses of these data enabled the identification of candidate regulators controlling EC behavior at different developmental checkpoints. The detailed characterization of Mafb, one of the identified candidates, established that this transcription factor controls endothelial sprouting in vitro and in vivo. Integrative analysis of RNA-Seq and ChIP-Seq data defined putative direct Mafb targets, which are repressed or activated by the transcriptional regulator. Together, our results identify novel cell-autonomous regulatory mechanisms controlling sprouting angiogenesis.

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Project description:Actively translating transcriptome (Ribotag) profiling of mouse retinal endothelial cells during postnatal development

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Project description:Two-color microarray experiment compariing the profiles of CBP80-associated mRNAs and eIF4E-associated mRNAs in actively translating polysomes.

2021-12-08 | GSE85795 | GEO

RiboTag analysis of actively translated mRNAs in Sertoli and Leydig cells in vivo

Project description:Analysis of Sertoli and Leydig cell “translatome” utilizing an in vivo ribosome tagging strategy (RiboTag) that allows a detailed and physiologically relevant characterization of the polysome-associated mRNAs in vivo. Although progress has been made in the identification of specific transcripts that are translated in Sertoli and Leydig cells and their response to hormones, efforts to expand these studies have been restricted by technical hurdles. Our analysis identified all previously characterized Leydig and Sertoli cell-specific markers and identified in a comprehensive manner novel markers of Leydig and Sertoli cells; the translational response of these two cell types to gonadotropins or testosterone was also investigated. Leydig cell-specific (Cyp17iCre: RiboTag) and Sertoli cell-specific (AMH-Cre: RiboTag) RiboTag mice were obtained by crossing RiboTag homozygous mice with Cyp17iCre or AMH-Cre mice. For in vivo LH treatment experiments, mice were injected with the GnRH antagonist acyline for 4 days before a single injection of purified human LH. After treatment, testes were homogenized and polysomes were immunoprecipitated by utilizing an anti-HA antibody. RNA was extracted, labelled, and hybridized to Mouse Gene ST 1.0 arrays.

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RiboTag translatome analysis of outer hair cell postnatal development

Project description:In order to determine the regulators of outer hair cell postnatal maturation, we utilized the RiboTag mouse model to perform a detailed transcriptomic analysis of outer hair cells at five postnatal developmental time points: P8, P14, P28, 6 weeks (6wk) and 10 weeks (10wk). This analysis resulted in consistent enrichment of outer hair cell expressed genes in the immunoprecipitated RNA compared to whole cochlear input RNA from each time point. Using transcription factor binding motif prediction on a set of defined outer hair cell enriched genes, we further use this dataset to identify the helios transcription factor as a regulator of the postnatal outer hair cell transcriptome.

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RiboTag translatome analysis of outer hair cell postnatal development

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The P-body protein 4E-T regulates the balance between cell genesis and establishment of the postnatal neural stem cell pool by repressing mRNA translation [Ribotag]

Project description:To investigate the translatome of postnatal precursors of the V-SVZ cultured as neurospheres, we employed RiboTag analysis We performed RiboTag analysis on precursors derived from NestinCreERT2;RPL22HA/HA animals using specific anti-Hemagluttinin antibodies versus non-specific IgG controls

2024-02-08 | GSE224853 | GEO

Gene expression profiles of control IgG and anti-Dll4 Ab treated retinal endothelial cells (ECs) in EC-specific RiboTag mouse (Cdh5-CreERT2 Rpl22 tm1.1Psam)

Project description:We report the gene expression profiles of control IgG and anti-Dll4 Ab treated retinal endothelial cells (ECs) in EC-specific RiboTag mouse (Cdh5-CreERT2 Rpl22 tm1.1Psam )

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2022-01-31 | GSE195601 | GEO

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