10x Xenium
Mouse submandibular gland
GSM9401278
bronze Interactive viewer radiation injury Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 27329, 25592), (1, 13664, 12796), (1, 6832, 6398), (1, 3416, 3199), (1, 1708, 1599)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (26696, 24912), (13348, 12456), (6674, 6228), (3337, 3114), (1668, 1557)
│ └── 'nucleus_labels': DataTree[yx] (23177, 24828), (11588, 12414), (5794, 6207), (2897, 3103), (1448, 1551)
├── Points
│ └── 'transcripts': DataFrame with shape: (63692936, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (129470, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (129470, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (125333, 2) (2D shapes)
└── Tables
└── 'table': AnnData (129470, 5006)
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("Hcy1gt2xOkRbZVhv") # 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/Hcy1gt2xOkRbZVhv
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid Hcy1gt2xOkRbZVhv Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["Hcy1gt2xOkRbZVhv0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- submandibular gland
- Condition
- radiation injury
- Modality
- RNA
- Observations
- 129,470
- Transcripts
- 63,692,936
- Tier
- bronze
- Size
- 2.0 GB
- Sample ID
- GSM9401278
- License
- unknown
- Published
- Aug 23, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB