10x Xenium
Human pleura
GSM9052321
bronze Interactive viewer pleural mesothelioma Provisional
print(sdata)
SpatialData object
├── Labels
│ ├── 'cell_labels': DataTree[yx] (50403, 34802), (25201, 17401), (12600, 8700), (6300, 4350), (3150, 2175)
│ └── 'nucleus_labels': DataTree[yx] (50262, 34664), (25131, 17332), (12565, 8666), (6282, 4333), (3141, 2166)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (86150, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (86150, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (86150, 1) (2D shapes)
└── Tables
└── 'table': AnnData (86150, 339)
with coordinate systems:
▸ 'global', with elements:
cell_labels (Labels), nucleus_labels (Labels), 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("ZY5xEAVMnrGBmoqf") # 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/ZY5xEAVMnrGBmoqf
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid ZY5xEAVMnrGBmoqf Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["ZY5xEAVMnrGBmoqf0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- pleura
- Condition
- pleural mesothelioma
- Modality
- RNA
- Observations
- 86,150
- Tier
- bronze
- Size
- 111 MB
- Sample ID
- GSM9052321
- License
- unknown
- Published
- Jun 30, 2025
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB