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The in vivo endothelial cell translatome is highly heterogeneous across vascular beds (EC-TRAP RNAseq)

ABSTRACT: The in vivo endothelial cell translatome is highly heterogeneous across vascular beds (EC-TRAP RNAseq)

PROVIDER: PRJNA576635 | ENA |

REPOSITORIES: ENA

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The in vivo endothelial cell translatome is highly heterogeneous across vascular beds (EC-TRAP RNAseq)

Project description:The interspersed anatomic distribution of endothelial cells (ECs) and their dependence on microenvironmental cues have been major challenges in studying EC function and response to (patho)physiological stimuli in vivo. Combining EC-specific translating ribosome affinity purification (EC-TRAP) with RNA sequencing provides an accurate in vivo snapshot of tissue-specific EC expression profiles, and maintains a high degree of sensitivity to detect low abundant transcripts while limiting changes in gene expression profiles due to enzymatic tissue dissociation required to generate single cell suspensions for FACS sorting or single cell analysis. In addition to demonstrating EC heterogeneity under physiologic conditions, the in vivo host response to lipopolysaccharide (LPS) revealed the induction of expression programs associated with a native defense response, with marked differences across vascular beds.

2019-10-10 | GSE138629 | GEO

The in vivo endothelial cell translatome is highly heterogeneous across vascular beds

Project description:The in vivo endothelial cell translatome is highly heterogeneous across vascular beds

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The in vivo endothelial cell translatome is highly heterogeneous across vascular beds (HUVEC RNAseq)

Project description:The interspersed anatomic distribution of endothelial cells (ECs) and their dependence on microenvironmental cues have been major challenges in studying EC function and response to (patho)physiological stimuli in vivo. Combining EC-specific translating ribosome affinity purification (EC-TRAP) with RNA sequencing provides an accurate in vivo snapshot of tissue-specific EC expression profiles, and maintains a high degree of sensitivity to detect low abundant transcripts while limiting changes in gene expression profiles due to enzymatic tissue dissociation required to generate single cell suspensions for FACS sorting or single cell analysis. In vitro HUVEC data was obtained to ensure short-term cycloheximide treatment, as used for in vivo experiments, did not alter global gene expression.

2019-10-10 | GSE138628 | GEO

The in vivo endothelial cell translatome is highly heterogeneous across vascular beds (HUVEC RNAseq)

Project description:The in vivo endothelial cell translatome is highly heterogeneous across vascular beds (HUVEC RNAseq)

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The in vivo endothelial cell translatome is highly heterogeneous across vascular beds.

Project description: Not available

| S-EPMC6876253 | biostudies-literature

Evaluation of TRAP-sequencing technology with a versatile conditional mouse model

Project description:Evaluation of TRAP-sequencing by comparing transcriptomes and translatomes of different organs and distinct cell populations. E14.5 brain and kidney transcriptome and translatome profiling of organs or distinct cell populations from these organs was performed using the Illumina TruSeq RNA technology.

2013-10-28 | E-GEOD-51619 | biostudies-arrayexpress

A single cell transcriptome atlas of murine endothelial cells

Project description:The heterogeneity of endothelial cells (ECs), lining blood vessels, across tissues remains incompletely inventoried. We constructed an atlas of >32,000 single-EC transcriptomic data from 11 tissues of the model organism Mus musculus. We propose a new classification of EC phenotypes based on transcriptome signatures and inferred putative biological features. We identified top-ranking markers for ECs from each tissue. ECs from different vascular beds (arteries, capillaries, veins, lymphatics) resembled each other across tissues, but only arterial, venous and lymphatic (not capillary) ECs shared markers, illustrating a greater heterogeneity of capillary ECs. We identified high-endothelial-venule and lacteal-like ECs in the intestines, and angiogenic ECs in healthy tissues. Metabolic transcriptomes of ECs differed amongst spleen, lung, liver, brain and testis, while being similar for kidney, heart, muscle and intestines. Within tissues, metabolic gene expression was heterogeneous amongst ECs from different vascular beds, altogether highlighting large EC heterogeneity.

2020-02-13 | E-MTAB-8077 | biostudies-arrayexpress

Comparison between EC and non-EC after EC purification

Project description:Comparison between EC and non-EC after EC purification in kidney and lung.

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The in vivo endothelial cell translatome is highly heterogeneous across vascular beds

Project description:This SuperSeries is composed of the SubSeries listed below.

2019-10-10 | GSE138630 | GEO

Molecular profiling of vascular beds in vivo by DISDIVO

Project description:We developed a new technique named as Differential Systemic Decellularization in vivo (DISDIVO) for the molecular profiling of vascular beds throughout the body. This method can by applied to murine models. Thus, the data provided here correspond to mice vascular beds obtained in vivo by DISDIVO.

2018-12-06 | PXD008794 | Pride

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