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The effect of cellular context on miR-155 mediated gene regulation in four major immune cell types (PolyA-Seq)

ABSTRACT: The effect of cellular context on miR-155 mediated gene regulation in four major immune cell types (PolyA-Seq)

PROVIDER: PRJNA478602 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR7457160_1.fastq.gz	Fastqsanger.gz
	SRR7457160_2.fastq.gz	Fastqsanger.gz
	SRR7457170_1.fastq.gz	Fastqsanger.gz
	SRR7457170_2.fastq.gz	Fastqsanger.gz
	SRR7457180_1.fastq.gz	Fastqsanger.gz

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The effect of cellular context on miR-155 mediated gene regulation in four major immune cell types (PolyA-Seq)

Project description:Numerous microRNAs and their target mRNAs are co-expressed across diverse cell types. However, it is unknown whether they are regulated in a cellular context-independent or -dependent manner. Here, we explored transcriptome-wide targeting and gene regulation by miR-155, whose activation-induced expression plays important roles in innate and adaptive immunity. Through mapping of miR-155 targets using differential Argonaute iCLIP, mRNA quantification with RNA-Seq, and 3’UTR usage analysis using polyadenylation (polyA)-Seq in activated miR-155-sufficient and deficient macrophages, dendritic cells, T and B lymphocytes, we identified numerous targets differentially bound by miR-155. While alternative cleavage and polyadenylation (ApA) contributed to differential miR-155 binding to some transcripts, in a majority of cases identical 3’UTR isoforms were differentially regulated across cell types, suggesting ApA-independent and cellular context-dependent miR-155-mediated gene regulation reminiscent of sequence-specific transcription factors. Our study provides comprehensive maps of miR-155 regulatory RNA networks and offers a valuable resource for dissecting context-dependent and -independent miRNA-mediated gene regulation in key cell types of the adaptive and innate immune systems.

2018-07-02 | GSE116468 | GEO

The effect of cellular context on miR-155 mediated gene regulation in four major immune cell types (iCLIP)

2018-07-02 | GSE116466 | GEO

The effect of cellular context on miR-155 mediated gene regulation in four major immune cell types (RNA-Seq)

2018-06-28 | GSE116348 | GEO

The effect of cellular context on miR-155 mediated gene regulation in four major immune cell types

Project description:The effect of cellular context on miR-155 mediated gene regulation in four major immune cell types

| PRJNA479386 | ENA

The effect of cellular context on miR-155 mediated gene regulation in four major immune cell types (iCLIP)

Project description:The effect of cellular context on miR-155 mediated gene regulation in four major immune cell types (iCLIP)

| PRJNA478598 | ENA

The effect of cellular context on miR-155 mediated gene regulation in four major immune cell types (RNA-Seq)

Project description:The effect of cellular context on miR-155 mediated gene regulation in four major immune cell types (RNA-Seq)

| PRJNA478229 | ENA

The effect of cellular context on miR-155-mediated gene regulation in four major immune cell types.

Project description:Numerous microRNAs and their target mRNAs are coexpressed across diverse cell types. However, it is unknown whether they are regulated in a manner independent of or dependent on cellular context. Here, we explored transcriptome-wide targeting and gene regulation by miR-155, whose activation-induced expression plays important roles in innate and adaptive immunity. Through mapping of miR-155 targets through differential iCLIP, mRNA quantification with RNA-seq, and 3' untranslated region (UTR)-usage analysis with poly(A)-seq in macrophages, dendritic cells, and T and B lymphocytes either sufficient or deficient in activated miR-155, we identified numerous targets differentially bound by miR-155. Whereas alternative cleavage and polyadenylation (ApA) contributed to differential miR-155 binding to some transcripts, in most cases, identical 3'-UTR isoforms were differentially regulated across cell types, thus suggesting ApA-independent and cellular-context-dependent miR-155-mediated gene regulation. Our study provides comprehensive maps of miR-155 regulatory networks and offers a valuable resource for dissecting context-dependent and context-independent miRNA-mediated gene regulation in key immune cell types.

| S-EPMC6158091 | biostudies-literature

The effect of cellular context on miR-155 mediated gene regulation in four major immune cell types

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

2018-07-02 | GSE116561 | GEO

MicroRNA-155 is upregulated in Hoxa9/Meis1 leukemia inducing cells but is dispensable for in vivo transformation and leukemia development

Project description:OBJECTIVE: The microRNA miR-155 is upregulated in Hoxa9 and Meis1 leukemia inducing cells (LIC) , and miR-155 accelerates the onset of acute myeloid leukemia (AML) together with Hoxa9 but through largely unknown molecular mechanisms. The impact of miR-155 on accelerated onset of leukemia in the context of Hoxa9 and Meis1 is also unclear. To further resolve this, we performed a gene expression profiling, in the context of Hoxa9 and Meis1 leukemogenesis with miR-155 knocked out. RESULTS: Gene expression profiling of Hoxa9/Meis1 LIC without miR-155 does not delay the onset of AML and the gene expression changes are small

2017-04-27 | GSE80660 | GEO

MicroRNA-155 is a direct target of Meis1, but not a driver in acute myeloid leukemia

Project description:OBJECTIVE: The microRNA miR-155 is upregulated by Hoxa9 and Meis1, and accelerate the onset of acute myeloid leukemia (AML) together with Hoxa9 but through largely unknown molecular mechanisms. To further resolve these mechanisms, we performed a gene expression profiling, in the context of Hoxa9 leukemogenesis with our without overexpression of miR-155. RESULTS: Gene expression profiling of a Hoxa9 preleukemic cell line transduced with miR-155 leads to differential expression of multiple genes, including a set not previously implicated as miR-155 targets.

2017-12-01 | GSE76113 | GEO

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