Grainne Mary O'Kane

Integrated whole-genome and transcriptome sequencing reveals divergent evolutionary processes across biliary tract cancer subtypes

The paper uses whole-genome and transcriptome sequencing to identify two consensus cancer subtypes in biliary tract cancer, revealing divergent molecular landscapes that better explain tumor heterogeneity than anatomical classification.

Extra-lineage tissue programs define the transcription states of human pancreatic cancer

The paper identifies four epithelial transcription states in pancreatic cancer and links their origins to early developmental processes.

Transcriptomic, Genomic, and Clinical Characterization of Morphological Classes in Localized and Metastatic Pancreatic Cancer

This study characterizes morphological classes in pancreatic cancer using transcriptomic, genomic, and clinical data to identify molecular associations and prognostic implications.

The subclonal footprint of pervasive early dissemination in pancreatic cancer

This study analyzes ctDNA shedding in pancreatic cancer using paired tissue and plasma whole genomes, finding that subclones contribute significantly to early dissemination and ctDNA levels.

Integrated spatial proteomics of human PDAC uncovers an expanded tumour-immune-stroma spectrum with genomic associations

This study integrates spatial proteomics and genomics in PDAC to identify tumour-immune-stroma interactions and their genomic associations, showing multi-omics models improve patient survival prediction.

nSMase2-mediated exosome secretion shapes the tumor microenvironment to immunologically support pancreatic cancer

This study shows that eliminating nSMase2 in pancreatic cancer reduces tumor growth, promotes a less aggressive tumor subtype, and enhances immune responses by altering exosome production and macrophage polarization.

Inferring tumour microenvironment ecosystems from scRNA-seq atlases

The paper infers multicellular ecosystems from nonspatial scRNA-seq data and shows they predict therapy response and are linked to somatic mutations.