Project name: Rattus norvegicus

Description: We identify the RNA targets of TAR DNA-binding protein 43 (TDP-43) from cortical neurons by RNA immunoprecipitation followed by deep sequencing (RIP-seq). We identify 4352 highly enriched RNA targets of TDP-43. We determined that the canonical TDP-43 binding site (TG)n was 55.1-fold enriched in our TDP-43 library. Moreover, our analysis shows there is often an adenine in the middle of the motif, (TG)nTA(TG)m. TDP-43 RNA targets are particularly enriched for Gene Ontology terms related to RNA metabolism, neuronal development, and synaptic function.Overall design: Examination of TDP-43 RNA targets in rat cortical neurons by RIP-seq.Chantelle F. Sephton isolated the TDP-43:RNA complexes and generated the cDNA library for deep sequencing.Email: chantelle.sephton@utsouthwestern.eduPhone: 214-648-4119Fax: 214-648-1801ULR: http://www8.utsouthwestern.edu/utsw/cda/dept120915/files/151135.htmlOrganization name: University of Texas Southwestern Medical Center at DallasDepartment: NeuroscienceLab: Gang Yu labStreet: 6000 Harry Hines Blvd.City: DallasState: TexasZIP: 75390Country: USA

Data type: Transcriptome or Gene expression

Sample scope: Multiisolate

Relevance: ModelOrganism

Release date: 2010-11-04

Last updated: 2010-10-29