{"database":"GEO","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Other":["ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE325nnn/GSE325047/"]},"type":"primary"},"statusCode":"OK","statusCodeValue":200}],"scores":null,"additional":{"omics_type":["Transcriptomics"],"species":["Homo sapiens"],"gds_type":["Expression profiling by high throughput sequencing"],"full_dataset_link":["https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE325047"],"repository":["GEO"],"entry_type":["GSE"],"additional_accession":[]},"is_claimable":false,"name":"Pervasive Enhanced Transcription in Inflammatory Breast Cancer Tumors and PBMCs Impacts RNA Splicing and Intronic RNAs in Plasma","description":"Inflammatory breast cancer (IBC), the most aggressive and lethal breast cancer subtype, lacks unequivocal genomic differences or robust biomarkers that differentiate it from non-IBC. Here, Thermostable Group II Intron Reverse Transcriptase sequencing of RNA samples revealed myriad differences in tumors, PBMCs, and plasma that distinguished IBC from non-IBC patients and healthy donors across all tested non-IBC subtypes. By mapping reads to genome and transcriptome reference sequences and quantitating intron-to-exon read depth ratios, we developed methods for parallel analysis of transcriptional and post-transcriptional gene regulation. This analysis identified numerous protein-coding genes in IBC patient tumors and PBMCs with high intron-to-exon read depths, suggesting rate-limiting RNA splicing that negatively impacts mRNA production. Mirroring gene expression differences in tumors and PBMCs, over-represented protein-coding gene RNAs in IBC patient plasma were largely intron RNA fragments, while those in non-IBC patient and healthy donor plasma were largely mRNA fragments. Our findings provide new insights into IBC and should enable monitoring disease progression by liquid biopsy.","dates":{"publication":"2026/05/01"},"accession":"GSE325047","cross_references":{"GSM":["GSM9594650","GSM9594651","GSM9594652","GSM9594653","GSM9594654","GSM9594655","GSM9594612","GSM9594656","GSM9594690","GSM9594691","GSM9594646","GSM9594647","GSM9594648","GSM9594649","GSM9594682","GSM9594683","GSM9594640","GSM9594684","GSM9594641","GSM9594685","GSM9594686","GSM9594642","GSM9594643","GSM9594687","GSM9594644","GSM9594688","GSM9594689","GSM9594645","GSM9594680","GSM9594681","GSM9594635","GSM9594679","GSM9594636","GSM9594637","GSM9594638","GSM9594639","GSM9594671","GSM9594672","GSM9594673","GSM9594674","GSM9594630","GSM9594631","GSM9594675","GSM9594632","GSM9594676","GSM9594677","GSM9594633","GSM9594634","GSM9594678","GSM9594670","GSM9594624","GSM9594668","GSM9594669","GSM9594625","GSM9594626","GSM9594627","GSM9594628","GSM9594629","GSM9594660","GSM9594661","GSM9594662","GSM9594663","GSM9594620","GSM9594664","GSM9594621","GSM9594665","GSM9594666","GSM9594622","GSM9594623","GSM9594667","GSM9594657","GSM9594613","GSM9594614","GSM9594658","GSM9594615","GSM9594659","GSM9594616","GSM9594617","GSM9594618","GSM9594619"],"GPL":["18573"],"GSE":["325047"],"taxon":["Homo sapiens"]}}