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Genetic models reveal cis and trans immune-regulatory activities for lincRNA-Cox2 in vivo (lungs and spleens)

ABSTRACT: Genetic models reveal cis and trans immune-regulatory activities for lincRNA-Cox2 in vivo (lungs and spleens)

PROVIDER: PRJNA478239 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR7443810_1.fastq.gz	Fastqsanger.gz
	SRR7443810_2.fastq.gz	Fastqsanger.gz
	SRR7443820_1.fastq.gz	Fastqsanger.gz
	SRR7443820_2.fastq.gz	Fastqsanger.gz
	SRR7443830_1.fastq.gz	Fastqsanger.gz

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Genetic models reveal cis and trans immune-regulatory activities for lincRNA-Cox2 in vivo (lungs and spleens)

Project description:Here we compare gene expression profiles between lungs and spleens following LPS in vivo injection into Wild type, lincRNA-Cox2 knockout and lincRNA-Cox2 mutant mice The aim of the experiment is to determine the cis and trans functions for lincRNA-Cox2 following in vivo LPS challenge within the spleen and lung

2018-12-19 | GSE116354 | GEO

Genetic models reveal cis and trans immune-regulatory activities for lincRNA-Cox2 in vivo (lungs)

Project description:Here we compare gene expression profiles between lungs taken from a Wild type mouse to lungs from a lincRNA-Cox2 knockout mouse The aim of the experiment is to determine what impact lincRNA-Cox2 has on gene expression within the lung

2018-12-19 | GSE105068 | GEO

Genetic models reveal cis and trans immune-regulatory activities for lincRNA-Cox2 in vivo (lungs)

Project description:Genetic models reveal cis and trans immune-regulatory activities for lincRNA-Cox2 in vivo (lungs)

| PRJNA414568 | ENA

Genetic models reveal cis and trans immune-regulatory activities for lincRNA-Cox2 in vivo

Project description:Genetic models reveal cis and trans immune-regulatory activities for lincRNA-Cox2 in vivo

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Genetic models reveal cis and trans immune-regulatory activities for lincRNA-Cox2 in vivo (macrophages)

Project description:Genetic models reveal cis and trans immune-regulatory activities for lincRNA-Cox2 in vivo (macrophages)

| PRJNA481949 | ENA

Genetic Models Reveal cis and trans Immune-Regulatory Activities for lincRNA-Cox2.

Project description:An inducible gene expression program is a hallmark of the host inflammatory response. Recently, long intergenic non-coding RNAs (lincRNAs) have been shown to regulate the magnitude, duration, and resolution of these responses. Among these is lincRNA-Cox2, a dynamically regulated gene that broadly controls immune gene expression. To evaluate the in vivo functions of this lincRNA, we characterized multiple models of lincRNA-Cox2-deficient mice. LincRNA-Cox2-deficient macrophages and murine tissues had altered expression of inflammatory genes. Transcriptomic studies from various tissues revealed that deletion of the lincRNA-Cox2 locus also strongly impaired the basal and inducible expression of the neighboring gene prostaglandin-endoperoxide synthase (Ptgs2), encoding cyclooxygenase-2, a key enzyme in the prostaglandin biosynthesis pathway. By utilizing different genetic manipulations in vitro and in vivo, we found that lincRNA-Cox2 functions through an enhancer RNA mechanism to regulate Ptgs2. More importantly, lincRNA-Cox2 also functions in trans, independently of Ptgs2, to regulate critical innate immune genes in vivo.

| S-EPMC6291222 | biostudies-literature

Genetic models reveal cis and trans immune-regulatory activities for lincRNA-Cox2 in vivo

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

2018-12-19 | GSE117379 | GEO

Genetic models reveal cis and trans immune-regulatory activities for lincRNA-Cox2 in vivo (macrophages)

Project description:Here we amplified a region in exon 5 of Ptgs2 that contains SNPs to allow us to differenitate between the C57 allele and the MOLF allele

2018-12-19 | GSE117377 | GEO

Deconstructing lincRNA regulation during ESC to NPC differentiation

Project description:Using single-cell and bulk RNA-sequencing, we profiled mouse embryonic stem cells and neural precursor cells to identify lincRNAs with cell type- and subpopulation-specific expression. In contrast to mRNAs, we found that lincRNAs are prone to prematurely terminate transcription, are less abundant across single cells, and are degraded by the nuclear exosome. These properties indicate that lincRNA genes widely function without requiring their RNA product. To test this prediction experimentally, we developed a method that separates the role of a lincRNA gene from the role of its RNA product. This revealed RNA-independent lincRNA gene activities, underscoring the importance of distinguishing the roles of transcription, the genomic locus, and the RNA product when studying non-coding loci, for which we are providing suitable tools.

2018-08-01 | GSE107493 | GEO

Transcriptome analysis of IEC4.1 cells in response to TNFα stimulation.

Project description:Mouse intestinal epithelial cells (IEC4.1 cells) were stimulated with TNFα (10 ng/ml) for 4h. The Agilent SurePrint G3 Mouse Gene Expression Microarray (G4852A) was used for the analysis, which provides full coverage of genes and transcripts with the most up-to-date content, including mRNAs and lincRNAs (http://www.chem.agilent.com/store/en_US/Prod-G4852A/G4852A). IEC4.1 cells were grown to 80% confluence for four groups: the siRNA control (Group A, cells treated with a non-specific scrambied siRNA control), the TNFα -stimulated (Group B, cells treated with the siRNA control plus TNFα stimulation), lincRNA-Cox2 siRNA (Group C, cells treated with an siRNA to lincRNA-Cox2), and lincRNA-Cox2 siRNA/ TNFα stimulated (Group D, cells treated with the lincNRA-Cox2 siRNA plus TNFα stimulation). Cells were treated with the siRNAs for 24h, followed by additional culture for 4h in the presence or absence of TNFα (10 ng/ml). Total RNAs were prepared with the RNeasy Mini kit (Qiagen) according to the manufacturer’s instruction (Ambion).

2016-10-25 | E-MTAB-3904 | biostudies-arrayexpress

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