10x Xenium
Mouse brain
GSM9924904
silver Interactive viewer No linked publication
print(sdata)
SpatialData object
├── Labels
│ ├── 'cell_labels': DataTree[yx] (23708, 25674), (11854, 12837), (5927, 6418), (2963, 3209), (1481, 1604)
│ └── 'nucleus_labels': DataTree[yx] (22225, 23617), (11112, 11808), (5556, 5904), (2778, 2952), (1389, 1476)
├── Points
│ └── 'transcripts': DataFrame with shape: (46937848, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (56933, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (56933, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (56666, 2) (2D shapes)
└── Tables
└── 'table': AnnData (56933, 345)
with coordinate systems:
▸ 'global', with elements:
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("zkeV08JSkRhCr1JS") # 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/zkeV08JSkRhCr1JS
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid zkeV08JSkRhCr1JS Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["zkeV08JSkRhCr1JS0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- brain
- Modality
- RNA
- Observations
- 56,933
- Transcripts
- 46,937,848
- Tier
- silver
- Size
- 883 MB
- Sample ID
- GSM9924904
- License
- unknown
- Published
- Aug 21, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB