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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Regulation of exon definition and apoptosis by the Ewing's Sarcoma Protein

ABSTRACT: The Ewing's Sarcoma Protein EWS belongs to the TET family (FUS/TLS, EWS, TAF15) of RNA and DNA binding proteins, implicated in DNA transcription, pre-mRNA splicing and maintenance of genome integrity. To identify in vivo RNA targets of EWS we performed a combinatorial approach of CLIP-Seq In this dataset, we include the expression data obtained from three biological replicates of HeLa cells transfected with either scrambled or siEWS oligonucleotides. These data allowed us to identify 805 genes affected at the expression level by EWS knockdown, of which 395 upregulated and 410 downregulated. Moreover, HJAY identified 206 differentially regulated alternative splicing events in 114 genes. Three biological replicates were labeled and hybridized onto Affymetrix HJAY

ORGANISM(S): Homo sapiens

SUBMITTER: Maria Paola Paronetto

PROVIDER: E-GEOD-47790 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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EWS siRNA knock-down in HeLa cell line

Project description:HeLa cell line was trasfected by a EWS siRNA oligo causing knock-down of EWS or a siRNA scrambled oligo Three biological replicates were labeled in direct and dye-swap microarray experiments and hybridized onto an Agilent custom splicing-sensitive microarray platform.

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Project description:We have independently knocked down TRA2B and SRSF3 in HEK293 cells to identify the sum of alternative splicing changes that results from depletion of each factor. Each was compared to a control transfection of the hairpin vector alone. In this set, 9 total samples were analyzed. There were three biological replicates for each of three conditions: knockdown control, TRA2B knockdown and SRSF3 knockdown. Arrays were analyzed for gene expression using GeneBase and for alternative splicing using MADS+ and OmniViewer software.

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Digitoxin treatment versus control in HEK293 cells

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TDP-43 can directly affect splicing profiles and isoform production of genes involved in the apoptotic and mitotic cellular pathways

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Regulation of FAS Exon Definition and Apoptosis by the Ewing Sarcoma Protein

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2014-01-01 | GSE47790 | GEO

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