Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

RNA mapping of Drosha deficient cells

ABSTRACT: Here we show the microRNA genes can been very large and displaying many summarizing structural characteristics MicroRNA biogenesis was ablated in CD4+ and CD8+ by deleted Rnasen gene (encoding Drosha). Poly A RNAs were extracted and analyzed by ultra high throughput sequencing

ORGANISM(S): Mus musculus

SUBMITTER: Mark Chong

PROVIDER: E-GEOD-30578 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Dynamic microRNA gene transcription and processing during T cell development.

Kirigin Francis F FF Lindstedt Kenneth K Sellars Maclean M Ciofani Maria M Low Siao Li SL Jones Lachlan L Bell Fiona F Pauli Florencia F Bonneau Richard R Myers Richard M RM Littman Dan R DR Chong Mark M W MM

Journal of immunology (Baltimore, Md. : 1950) 20120229 7

By disrupting microRNA (miRNA) biogenesis, we previously showed that this pathway is critical for the differentiation and function of T cells. Although various cloning studies have shown that many miRNAs are expressed during T cell development, and in a dynamic manner, it was unclear how comprehensive these earlier analyses were. We therefore decided to profile miRNA expression by next generation sequencing. Furthermore, we profiled miRNA expression starting from the hematopoietic stem cell. Thi ...[more]

PMID: 22379031

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Project description:Although gain of chromosome-5p is one of the most frequent DNA copy number imbalances in cervical squamous cell carcinoma (SCC), the genes that drive its selection remain poorly understood. In a previous cross-sectional clinical study we showed that the microRNA processor Drosha (located on chromosome-5p) demonstrates frequent copy-number gain and over-expression in cervical SCC, associated with altered microRNA profiles. Here, we have conducted gene depletion/over-expression experiments to demonstrate the functional significance of up-regulated Drosha in cervical SCC cells. Drosha depletion by RNA-interference (RNAi) produced significant, specific reductions in cell motility/invasiveness in vitro, with a silent RNAi-resistant Drosha mutation providing phenotype rescue. Unsupervised hierarchical clustering following global profiling of 319 microRNAs in eighteen cervical SCC cell line specimens generated two groups according to Drosha expression levels. Altering Drosha levels in individual SCC lines changed the group into which the cells clustered, with gene depletion effects being rescued by the RNAi-resistant mutation. Forty-five microRNAs showed significant differential expression between the groups, including four of fourteen that were differentially-expressed in association with Drosha levels in clinical samples. miR-31 up-regulation in Drosha over-expressing samples/cell lines was the highest-ranked change (by adjusted p-value) in both analyses, an observation validated by Northern blotting. These functional data support the role of Drosha as an oncogene in cervical SCC, by affecting expression of cancer-associated microRNAs that have the potential to regulate numerous protein-coding genes. This SuperSeries is composed of the following subset Series: GSE26175: Functional evidence that Drosha over-expression in cervical squamous cell carcinoma affects cell phenotype and microRNA profiles [miRNA] GSE26176: Functional evidence that Drosha over-expression in cervical squamous cell carcinoma affects cell phenotype and microRNA profiles [mRNA] Refer to individual Series

Dataset Information

RNA mapping of Drosha deficient cells

Publications

Dynamic microRNA gene transcription and processing during T cell development.

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