10x Xenium
Leucoraja erinaceus trunk
GSM9901436
silver Interactive viewer No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 91737, 11485), (1, 45868, 5742), (1, 22934, 2871), (1, 11467, 1435), (1, 5733, 717)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (90420, 11143), (45210, 5571), (22605, 2785), (11302, 1392), (5651, 696)
│ └── 'nucleus_labels': DataTree[yx] (90399, 11131), (45199, 5565), (22599, 2782), (11299, 1391), (5649, 695)
├── Points
│ └── 'transcripts': DataFrame with shape: (24259384, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (125982, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (125982, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (126202, 2) (2D shapes)
└── Tables
└── 'table': AnnData (125982, 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("bO0NjlthGqdwvoKs") # 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/bO0NjlthGqdwvoKs
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid bO0NjlthGqdwvoKs Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["bO0NjlthGqdwvoKs0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- leucoraja erinaceus
- Tissue
- trunk
- Modality
- RNA
- Observations
- 125,982
- Transcripts
- 24,259,384
- Tier
- silver
- Size
- 1.3 GB
- Sample ID
- GSM9901436
- License
- unknown
- Published
- Jul 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