10x Xenium
Human urinary bladder
GSM9625563
silver Interactive viewer urinary bladder carcinoma No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 10324, 31309), (1, 5162, 15654), (1, 2581, 7827), (1, 1290, 3913), (1, 645, 1956)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (7586, 29404), (3793, 14702), (1896, 7351), (948, 3675), (474, 1837)
│ └── 'nucleus_labels': DataTree[yx] (7568, 29358), (3784, 14679), (1892, 7339), (946, 3669), (473, 1834)
├── Points
│ └── 'transcripts': DataFrame with shape: (11898553, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (20552, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (20552, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (20520, 2) (2D shapes)
└── Tables
└── 'table': AnnData (20552, 5001)
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("kG31vVZJc0uGxEFg") # 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/kG31vVZJc0uGxEFg
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid kG31vVZJc0uGxEFg Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["kG31vVZJc0uGxEFg0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- urinary bladder
- Condition
- urinary bladder carcinoma
- Modality
- RNA
- Observations
- 20,552
- Transcripts
- 11,898,553
- Tier
- silver
- Size
- 512 MB
- Sample ID
- GSM9625563
- License
- unknown
- Published
- May 5, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB