Long-read-informed integrative analyses of breast cancer risk

This repository contains data files realted to the manuscript "Improving isoform-level eQTL and integrative genetic analyses of breast cancer risk with long-read RNA transcript assemblies" (doi: https://doi.org/10.64898/2026.03.22.713514). GTF files contain tissue-resolved transcriptome annotations generated from long-read RNA sequencing and processed using the transcript assembly and filtering protocols described in the manuscript. The GTFs represent high-confidence, full-length transcript isoforms identified in three breast cancer–relevant tissue contexts: Healthy mammary tissue Breast cancer tumor samples Fibroblasts Please note that novel transcript isoform IDs begin with the prefix “ESPRESSO.” These identifiers are assigned independently within each tissue-specific assembly. As a result, identical ESPRESSO transcript IDs across tissues do not imply the same underlying isoform structure. Cross-tissue isoform comparisons should therefore be performed using genomic coordinates and splice junction structure rather than transcript ID alone.