10x Xenium
Mouse embryo
GSM9304327
silver Interactive viewer No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 13701, 22786), (1, 6850, 11393), (1, 3425, 5696), (1, 1712, 2848), (1, 856, 1424)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (13619, 21988), (6809, 10994), (3404, 5497), (1702, 2748), (851, 1374)
│ └── 'nucleus_labels': DataTree[yx] (13605, 21891), (6802, 10945), (3401, 5472), (1700, 2736), (850, 1368)
├── Points
│ └── 'transcripts': DataFrame with shape: (19846096, 11) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (83239, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (83239, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (84772, 2) (2D shapes)
└── Tables
└── 'table': AnnData (83239, 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("igw9oU1z6Xn1ewGP") # 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/igw9oU1z6Xn1ewGP
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid igw9oU1z6Xn1ewGP Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["igw9oU1z6Xn1ewGP0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- embryo
- Modality
- RNA
- Observations
- 83,239
- Transcripts
- 19,846,096
- Tier
- silver
- Size
- 1.1 GB
- Sample ID
- GSM9304327
- 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