Published March 5, 2025
| Version 1.0.0
Dataset
Open
Concerted epithelial and stromal changes during progression of Barrett's Esophagus to invasive adenocarcinoma exposed by multi-scale, multi-omics analysis
Description
Datasets accompanying the publication "Concerted changes in Epithelium and Stroma: a multi-scale, multi-omics analysis of progression from Barrett’s Esophagus to adenocarcinoma" (preprint, publication).
See also the code associated with the paper.
scRNAseq
Data is in `h5ad` format , i.e. count matrices (cells x genes) for
- `EsophagusAtlas_primary_dataset.h5ad`: the primary cohort
- `EsophagusAtlas_validation_dataset.h5ad`:the validation cohort
- `EsophagusAtlas_primary_and_validation_dataset.h5ad`: primary+validation cohort merged
CODEX
Data is in `h5mu` format, i.e. multiple samples stacked as `modalities`. 28 samples total.
Files
Additional details
Related works
- Is published in
- Publication: 10.1016/j.devcel.2025.06.034 (DOI)
Software
- Repository URL
- https://github.com/redst4r/crukiopy_release
- Programming language
- Python
- Development Status
- Active