10x Xenium
Human pancreas
GSM9372003
bronze Interactive viewer pancreatic adenocarcinoma Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataArray[cyx] (1, 30683, 48344)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (30677, 47178), (15338, 23589), (7669, 11794), (3834, 5897), (1917, 2948)
│ └── 'nucleus_labels': DataTree[yx] (30658, 47138), (15329, 23569), (7664, 11784), (3832, 5892), (1916, 2946)
├── Points
│ └── 'transcripts': DataFrame with shape: (58994585, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (133272, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (133272, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (133126, 2) (2D shapes)
└── Tables
└── 'table': AnnData (133272, 5101)
with coordinate systems:
▸ 'global', with elements:
morphology_mip (Images), cell_labels (Labels), nucleus_labels (Labels), transcripts (Points), cell_boundaries (Shapes), cell_circles (Shapes), nucleus_boundaries (Shapes) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("n9ZxbmGR8CCbUhgN") # latest version
sdata = artifact.load() # cache, then load into memory
group = artifact.open() # stream without downloading
path = artifact.cache() # sync into the local cache, returns the path Load from the CLI
# one-shot: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/n9ZxbmGR8CCbUhgN
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid n9ZxbmGR8CCbUhgN Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["n9ZxbmGR8CCbUhgN0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openPart of collection
Neoadjuvant modified FOLFIRINOX plus nivolumab in borderline-resectable pancreatic ductal adenocarcinoma: a pilot phase 1 trial→ 6 datasets · publication
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- pancreas
- Condition
- pancreatic adenocarcinoma
- Modality
- RNA
- Observations
- 133,272
- Transcripts
- 58,994,585
- Tier
- bronze
- Size
- 2.5 GB
- Sample ID
- GSM9372003
- License
- NCBI GEO policy
- Published
- Dec 15, 2025
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB