E2-regulated transcriptome complexity revealed by long-read direct RNA sequencing: from isoform discovery to truncated proteins.

ABSTRACT: Oestrogen receptor alpha (ERα)-positive (ER+) breast cancers are driven by the binding of 17β-oestradiol (E2) to ERα, which transcriptionally regulates target genes. Although microarrays and conventional RNA sequencing have identified E2 target genes, pre-designed probes and short read lengths are limited in their ability to accurately capture complex transcript structures. Long-read sequencing offers a solution by spanning entire transcripts, providing a more complete view of the transcriptome. Here, we employed nanopore long-read direct RNA sequencing (DRS) complemented with 3'-end sequencing, in vitro experiments, and deep learning-based protein modelling to explore the landscape of the E2-responsive transcriptome and protein level implications. Our analysis revealed a range of E2-respo

SUBMITTER: Dioken DN 

PROVIDER: S-EPMC12456218 | biostudies-literature | 2025 Dec

REPOSITORIES: biostudies-literature