10x Xenium
Leucoraja erinaceus trunk
GSM9901433
silver Interactive viewer No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 95159, 17127), (1, 47579, 8563), (1, 23789, 4281), (1, 11894, 2140), (1, 5947, 1070)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (93982, 15561), (46991, 7780), (23495, 3890), (11747, 1945), (5873, 972)
│ └── 'nucleus_labels': DataTree[yx] (93955, 15553), (46977, 7776), (23488, 3888), (11744, 1944), (5872, 972)
├── Points
│ └── 'transcripts': DataFrame with shape: (26266070, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (162075, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (162075, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (162510, 2) (2D shapes)
└── Tables
└── 'table': AnnData (162075, 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("56WlqEikEqRf3vub") # 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/56WlqEikEqRf3vub
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 56WlqEikEqRf3vub Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["56WlqEikEqRf3vub0000"])[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
- 162,075
- Transcripts
- 26,266,070
- Tier
- silver
- Size
- 1.5 GB
- Sample ID
- GSM9901433
- 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