10x Xenium
Mouse multi-tissue structure
GSM9674371
silver Interactive viewer No linked publication
print(sdata)
SpatialData object
├── Labels
│ ├── 'cell_labels': DataTree[yx] (108416, 48285), (54208, 24142), (27104, 12071), (13552, 6035), (6776, 3017)
│ └── 'nucleus_labels': DataTree[yx] (108390, 48285), (54195, 24142), (27097, 12071), (13548, 6035), (6774, 3017)
├── Points
│ └── 'transcripts': DataFrame with shape: (418269972, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (640573, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (640573, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (638628, 2) (2D shapes)
└── Tables
└── 'table': AnnData (640573, 5106)
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("1ao7Tclmq7Vf7iGc") # 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/1ao7Tclmq7Vf7iGc
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 1ao7Tclmq7Vf7iGc Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["1ao7Tclmq7Vf7iGc0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- multi-tissue structure
- Modality
- RNA
- Observations
- 640,573
- Transcripts
- 418,269,972
- Tier
- silver
- Size
- 8.7 GB
- Sample ID
- GSM9674371
- License
- unknown
- Published
- Apr 20, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB