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MicroRNA (miRNA) expression profile in Huh7 cells treated with siRNA targeting nuclear factor 90 (siNF90)

ABSTRACT: Our previous study has showed that complex of NF90 and nuclear factor 45 (NF45) (NF90-NF45) inhibits miRNA biogenesis through negative regulation of primary-miRNA processing step. On the other hand, miRNAs, the biogenesis of which is regulated by NF90-NF45 in hepatocellular carcinoma, are not clear. Thus, to identify the miRNAs, we performed a miRNA array using RNAs extracted from control Huh7 cells and the cells depleted of NF90.

ORGANISM(S): Homo sapiens

PROVIDER: GSE67411 | GEO | 2015/03/31

SECONDARY ACCESSION(S): PRJNA279846

REPOSITORIES: GEO

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MicroRNA (miRNA) expression profile in Huh7 cells treated with siRNA targeting nuclear factor 90 (siNF90)

Project description:Our previous study has showed that complex of NF90 and nuclear factor 45 (NF45) (NF90-NF45) inhibits miRNA biogenesis through negative regulation of primary-miRNA processing step. On the other hand, miRNAs, the biogenesis of which is regulated by NF90-NF45 in hepatocellular carcinoma, are not clear. Thus, to identify the miRNAs, we performed a miRNA array using RNAs extracted from control Huh7 cells and the cells depleted of NF90. Comparison of miRNA expression profile in one non-targeting control siRNA (siNTC)- or two independent siNF90-treated Huh7 cells.

2015-03-31 | E-GEOD-67411 | biostudies-arrayexpress

Whole genome expression microarray analysis in hepatocellular carcinoma cell line, Huh7 cells, treated with siRNA targeting for nuclear factor 90 (siNF90)

Project description:To identify genes regulated by complex of NF90 and nuclear factor 45 (NF45) in hepatocellular carcinoma, we performed comprehensive analyses of mRNA expression in Huh7 cells depleted of NF90. mRNA expression profile in Huh7 cells depleted of NF90.

2016-06-22 | E-GEOD-83589 | biostudies-arrayexpress

Whole genome expression microarray analysis in hepatocellular carcinoma cell line, Huh7 cells, treated with siRNA targeting for nuclear factor 90 (siNF90)

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MicroRNA (miRNA) expression profile in quadriceps of wild-type (WT) and NF90-NF45 double transgenic (dbTg) mice.

Project description:To investigate regulation of miRNA biogenesis by NF90-NF45 complex, we performed comprehensive analysis of miRNA expression in quandriceps of WT and NF90-NF45 dbTg mice. Comparison of miRNA expression profile in quandriceps between WT and NF90-NF45 dbTg mice.

2014-09-03 | E-GEOD-61001 | biostudies-arrayexpress

MicroRNA (miRNA) expression profile in quadriceps of wild-type (WT) and NF90-NF45 double transgenic (dbTg) mice.

Project description:To investigate regulation of miRNA biogenesis by NF90-NF45 complex, we performed comprehensive analysis of miRNA expression in quandriceps of WT and NF90-NF45 dbTg mice.

2014-09-03 | GSE61001 | GEO

Whole genome expression microarray analysis in quadriceps of wild-type and NF90-NF45 double transgenic mouse

Project description:The complex of NF90 and NF45 is known to participate in transcriptional regulation, mRNA stabilization and microRNA biogenesis in vitro. However, the physiological function of the NF90-NF45 complex is still unclear. To elucidate its functions, we generated NF90-NF45 double transgenic (dbTg) mice. Robust expression of NF90 and NF45 was detected in skeletal muscle. As mentioned above, NF90-NF45 complex is involved in regulation of genes via transcription and RNA metabolism. To identify genes regulated by NF90-NF45, we performed comprehensive analyses of mRNA expression in quadriceps of wild-type (WT) and NF90-NF45 dbTg mice. mRNA expression profile in quadriceps comparing WT and NF90-NF45 dbTg mice.

2015-04-07 | E-GEOD-67591 | biostudies-arrayexpress

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NF90 Modulates Processing of a Subset of Human Pri-miRNAs

Project description:This SuperSeries is composed of the SubSeries listed below. MicroRNAs are predicted to regulate the expression of more than 60% of mammalian genes and play fundamental roles in most biological processes. Deregulation of miRNA expression is a hallmark of most cancers and further investigation of mechanisms controlling miRNA biogenesis is needed. The dsRNA-binding protein, NF90 has been shown to act as a competitor of Microprocessor for a limited number of pri-miRNAs. Here, we show that NF90 has a more widespread effect on pri-miRNA biogenesis than previously thought. Genome-wide approaches revealed that NF90 is associated with the stem region of 38 pri-miRNAs, in a manner that is largely exclusive of Microprocessor. Following loss of NF90, 25 NF90-bound pri-miRNAs showed increased abundance of mature miRNA products. NF90-targeted pri-miRNAs are highly stable, having a lower free energy and fewer mismatches compared to all pri-miRNAs. Mutations leading to less stable structures reduced NF90 binding while increasing pri-miRNA stability led to ac quisition of NF90 association, as determined by RNA EMSA. NF90-bound and modulated pri-miRNAs are embedded in introns of host genes and expression of several is concomitantly modulated, including an oncogene implicated in metastasis of hepatocellular carcinoma, TIAM2. These data suggest that NF90 controls the processing of a subset of highly stable, intronic miRNAs.

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NF45 and NF90/NF110 coordinately regulate ESC pluripotency and differentiation

Project description:While years of investigation have elucidated many aspects of embryonic stem cell (ESC) regulation, the contributions of post-transcriptional and translational mechanisms to the pluripotency network remain largely unexplored. In particular, little is known in ESCs about the function of RNA binding proteins (RBPs), the protein agents of post-transcriptional regulation. We performed an unbiased RNAi screen of RBPs in an ESC differentiation assay and identified two related genes, NF45 (Ilf2) and NF90/NF110 (Ilf3), whose knockdown promoted differentiation to an epiblast-like state. Characterization of NF45 KO, NF90+NF110 KO, and NF110 KO ESCs showed that loss of NF45 or NF90+NF110 impaired ESC proliferation and led to dysregulated differentiation down embryonic lineages. Additionally, we found that NF45 and NF90/NF110 physically interact and influence the expression of each other at different levels of regulation. Globally across the transcriptome, NF45 KO ESCs and NF90+NF110 KO ESCs show similar expression changes. Moreover, NF90+NF110 RNA immunoprecipitation (RIP)-seq in ESCs suggested that NF90/NF110 directly regulate proliferation, differentiation, and RNA-processing genes. Our data support a model in which NF45, NF90, and NF110 operate in feedback loops that enable them, through both overlapping and independent targets, to help balance the push and pull of pluripotency and differentiation cues.

2017-05-28 | GSE95145 | GEO

Expression data from human T24 cells transfected with siNC or siNF90

Project description:NF90 is a double-stranded RNA binding protein that takes part in microRNA biogenesis, as a competitor for the association of the microprocessor complex with pri-miRNAs, leading to a decrease in miRNA production. We want to know which miRNAs changed in human bladder cancer cell T24 when we downregulated NF90. We used microarrays to detail the mature miRNA expression and identified distinct classes of 2-fold changed miRNAs during this process.

2018-05-31 | GSE82024 | GEO

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