10x Xenium
Mouse liver
GSM9329349
bronze Interactive viewer cholangitis Provisional
print(sdata)
SpatialData object
├── Labels
│ ├── 'cell_labels': DataTree[yx] (20460, 43871), (10230, 21935), (5115, 10967), (2557, 5483), (1278, 2741)
│ └── 'nucleus_labels': DataTree[yx] (20439, 43149), (10219, 21574), (5109, 10787), (2554, 5393), (1277, 2696)
├── Points
│ └── 'transcripts': DataFrame with shape: (62170988, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (100675, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (100675, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (101021, 2) (2D shapes)
└── Tables
└── 'table': AnnData (100675, 479)
with coordinate systems:
▸ 'global', with elements:
cell_labels (Labels), nucleus_labels (Labels), transcripts (Points), cell_boundaries (Shapes), cell_circles (Shapes), nucleus_boundaries (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("FVBm87J4g9TB8uCW0000")
ds.elements() # inspect without downloading
sdata = ds.to_sdata() # cached locally, reused
print(sdata) Python · lamindb
Needs pip install lamindb and network access to the Lamin database, which is limited during the alpha. If it fails, use the Client tab.
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("FVBm87J4g9TB8uCW") # stem uid: Lamin resolves it to the 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 Shell
# sddb client: download the .zarr into data/
sddb-cli download FVBm87J4g9TB8uCW0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/FVBm87J4g9TB8uCW
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid FVBm87J4g9TB8uCWLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- liver
- Condition
- cholangitis
- Modality
- RNA
- Observations (cells)
- 100,675
- Transcripts
- 62,170,988
- Tier
- bronze
- Size
- 1.3 GB
- Sample ID
- GSM9329349
- License
- NCBI GEO policy
- Published
- Feb 17, 2026
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