{"database":"GEO","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Other":["ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE344nnn/GSE344389/"]},"type":"primary"},"statusCode":"OK","statusCodeValue":200}],"scores":null,"additional":{"omics_type":["Other"],"species":["Mus musculus"],"gds_type":["Other"],"full_dataset_link":["https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE344389"],"repository":["GEO"],"entry_type":["GSE"],"additional_accession":[]},"is_claimable":false,"name":"Bru-seq analysis of nascent transcription in IDH1-R132H mutant versus wild-type mouse glioma neurospheres","description":"Mutations in isocitrate dehydrogenase 1 (IDH1-R132H) co-occur with TP53 and ATRX loss in adult low-grade glioma. Using a genetically engineered mouse glioma model (Sleeping Beauty transposon system; NRAS(G12V), shRNA-mediated Trp53 and Atrx knockdown, with or without mutant IDH1-R132H) and derived neurosphere (NS) cultures, we asked whether IDH1-R132H alters nascent transcription of DNA damage response (DDR) genes. Nascent RNA was metabolically labeled with 5-bromouridine (Bru) and Bru-labeled transcripts were immunopurified and sequenced (Bru-seq) to measure genome-wide nascent transcription rates at baseline (untreated), independent of steady-state mRNA abundance. Bru-seq identified increased nascent transcription of DDR genes, including Atm and Rad50, in IDH1-R132H-mutant (mIDH1) NS relative to wild-type IDH1 (wt-IDH1) NS, consistent with the epigenetic up-regulation of ATM signaling and enhanced DDR reported for this model.","dates":{"publication":"2026/08/20"},"accession":"GSE344389","cross_references":{"GSM":["GSM9978256","GSM9978255","GSM9978258","GSM9978257","GSM9978259","GSM9978261","GSM9978250","GSM9978260","GSM9978252","GSM9978263","GSM9978251","GSM9978262","GSM9978254","GSM9978264","GSM9978253"],"GPL":["17021"],"GSE":["344389"],"taxon":["Mus musculus"],"PMID":["[42760279]"]}}