10x Xenium
Mouse spinal cord
GSM9687902
bronze Interactive viewer Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 81542, 11468), (1, 40771, 5734), (1, 20385, 2867), (1, 10192, 1433), (1, 5096, 716)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (80790, 10989), (40395, 5494), (20197, 2747), (10098, 1373), (5049, 686)
│ └── 'nucleus_labels': DataTree[yx] (80650, 10900), (40325, 5450), (20162, 2725), (10081, 1362), (5040, 681)
├── Points
│ └── 'transcripts': DataFrame with shape: (6926741, 10) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (19509, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (19509, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (19509, 1) (2D shapes)
└── Tables
└── 'table': AnnData (19509, 300)
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("z2tjpgCeFMO7s6DJ") # 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/z2tjpgCeFMO7s6DJ
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid z2tjpgCeFMO7s6DJ Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["z2tjpgCeFMO7s6DJ0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- spinal cord
- Modality
- RNA
- Observations
- 19,509
- Transcripts
- 6,926,741
- Tier
- bronze
- Size
- 765 MB
- Sample ID
- GSM9687902
- License
- unknown
- Published
- Apr 28, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB