Cell states and neighborhoods in distinct clinical stages of primary and metastatic esophageal adenocarcinoma.

ABSTRACT: Esophageal adenocarcinoma (EAC) is a highly lethal cancer of the upper gastrointestinal tract with rising incidence in western populations. To decipher EAC disease progression and therapeutic response, we perform multiomic analyses of a cohort of primary and metastatic EAC tumors, incorporating single-nuclei transcriptomic and chromatin accessibility sequencing along with spatial profiling. We recover tumor microenvironmental features previously described to associate with therapy response. We subsequently identify five malignant cell programs, including undifferentiated, intermediate, differentiated, epithelial-to-mesenchymal transition, and cycling programs, which are associated with differential epigenetic plasticity and clinical outcomes, and for which we infer candidate transcription

SUBMITTER: Yates J 

PROVIDER: S-EPMC12208317 | biostudies-literature | 2025 Jun

REPOSITORIES: biostudies-literature