Regulation of constitutive and alternative splicing by PRMT5 reveals a role for Mdm4 pre-mRNA in sensing defects in the spliceosomal machinery (BeadChip)
Transcriptomics Dataset
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General Information
AccessionGSE45269
TitleRegulation of constitutive and alternative splicing by PRMT5 reveals a role for Mdm4 pre-mRNA in sensing defects in the spliceosomal machinery (BeadChip)
DescriptionProtein Arginine MethylTransferase 5 (PRMT5) is known to mediate epigenetic control on chromatin and to functionally regulate components of the splicing machinery. In this study we show that selective deletion of PRMT5 in different organs leads to cell cycle arrest and apoptosis. At the molecular level, PRMT5 depletion results in reduced methylation of Sm proteins, aberrant constitutive splicing and in the Alternative Splicing (AS) of specific mRNAs. We identify Mdm4 as one of these mRNAs, which due to its weak 5-Donor site, acts as a sensor of splicing defects and transduces the signal to activate the p53 response, providing a mechanistic explanation of the phenotype observed in PRMT5 conditional knockout mice. Our data demonstrate a key role of PRMT5, together with p53, as guardians of the transcriptome. This will have fundamental implications in our understanding of PRMT5 activity, both in physiological conditions, as well as pathological conditions, including cancer and neurological diseases.
Landing Pagehttps://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE45269
RepositoryGene Expression Omnibus
Tools used to analyze the dataset

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Dataset Accession

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A comprehensive gene set enrichment analysis web server 2016 update
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Characteristic Direction
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A geometrical multivariate approach to identify differentially expressed genes
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GeneMANIA
Published June 2010
Biological network integration for gene prioritization and predicting gene function
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L1000CDS2
Published August 2016
An ultra-fast LINCS L1000 Characteristic Direction signature search engine
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PAEA
Published November 2015
Enrichment analysis tool implementing the principal angle method
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Canned Analyses generated with the dataset

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Geneset

Small molecules which mimic PRMT5 KO
The L1000 database was queried in order to identify small molecule perturbations which mim...
Small molecules which reverse PRMT5 KO
The L1000 database was queried in order to identify small molecule perturbations which rev...
Enrichment analysis of genes dysregulated in PRMT5 KO
An enrichment analysis was performed on the top most dyresgulated genes determined by appl...
Interaction network and enrichment analysis of genes downregulated in PRMT5 KO
The analysis explores the gene interaction network and pathway enrichment of the top 50 mo...
Interaction network and enrichment analysis of genes upregulated in PRMT5 KO
The analysis explores the gene interaction network and pathway enrichment of the top 50 mo...
Enrichment analysis of genes downregulated in PRMT5 KO
An enrichment analysis was performed on the top 500 most downregulated genes identified by...
Enrichment analysis of genes upregulated in PRMT5 KO
An enrichment analysis was performed on the top 500 most upregulated genes identified by a...
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