10x Xenium
Mouse brain
GSM9942072
silver Interactive viewer No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 61212, 48320), (1, 30606, 24160), (1, 15303, 12080), (1, 7651, 6040), (1, 3825, 3020)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (60474, 47967), (30237, 23983), (15118, 11991), (7559, 5995), (3779, 2997)
│ └── 'nucleus_labels': DataTree[yx] (59164, 47939), (29582, 23969), (14791, 11984), (7395, 5992), (3697, 2996)
├── Points
│ └── 'transcripts': DataFrame with shape: (33039617, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (162857, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (162857, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (163414, 2) (2D shapes)
└── Tables
└── 'table': AnnData (162857, 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("lzgt8bXEuGzzq1tp") # 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/lzgt8bXEuGzzq1tp
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid lzgt8bXEuGzzq1tp Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["lzgt8bXEuGzzq1tp0000"])[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
- 162,857
- Transcripts
- 33,039,617
- Tier
- silver
- Size
- 2.5 GB
- Sample ID
- GSM9942072
- License
- unknown
- Published
- Aug 8, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB