10x Xenium
Mouse submandibular gland
GSM9401279
bronze Interactive viewer Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 27290, 34149), (1, 13645, 17074), (1, 6822, 8537), (1, 3411, 4268), (1, 1705, 2134)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (25695, 29849), (12847, 14924), (6423, 7462), (3211, 3731), (1605, 1865)
│ └── 'nucleus_labels': DataTree[yx] (25671, 29819), (12835, 14909), (6417, 7454), (3208, 3727), (1604, 1863)
├── Points
│ └── 'transcripts': DataFrame with shape: (33864567, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (171943, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (171943, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (168689, 2) (2D shapes)
└── Tables
└── 'table': AnnData (171943, 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("40pnlPN6rhVJwP4l") # 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/40pnlPN6rhVJwP4l
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 40pnlPN6rhVJwP4l Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["40pnlPN6rhVJwP4l0000"])[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
- Modality
- RNA
- Observations
- 171,943
- Transcripts
- 33,864,567
- Tier
- bronze
- Size
- 1.7 GB
- Sample ID
- GSM9401279
- 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