10x Xenium
Mouse brain
GSM9304338
silver Interactive viewer No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 37436, 25624), (1, 18718, 12812), (1, 9359, 6406), (1, 4679, 3203), (1, 2339, 1601)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (37265, 23214), (18632, 11607), (9316, 5803), (4658, 2901), (2329, 1450)
│ └── 'nucleus_labels': DataTree[yx] (36649, 22687), (18324, 11343), (9162, 5671), (4581, 2835), (2290, 1417)
├── Points
│ └── 'transcripts': DataFrame with shape: (47708956, 11) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (123209, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (123209, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (121603, 2) (2D shapes)
└── Tables
└── 'table': AnnData (123209, 347)
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("6MXx4bS8Py0kuUPw") # 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/6MXx4bS8Py0kuUPw
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 6MXx4bS8Py0kuUPw Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["6MXx4bS8Py0kuUPw0000"])[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
- 123,209
- Transcripts
- 47,708,956
- Tier
- silver
- Size
- 2.8 GB
- Sample ID
- GSM9304338
- License
- unknown
- Published
- Aug 12, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB