10x Xenium
Human lung
GSM9945416
silver Interactive viewer small cell lung carcinoma No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 23879, 22776), (1, 11939, 11388), (1, 5969, 5694), (1, 2984, 2847), (1, 1492, 1423)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (22061, 20163), (11030, 10081), (5515, 5040), (2757, 2520), (1378, 1260)
│ └── 'nucleus_labels': DataTree[yx] (21418, 18494), (10709, 9247), (5354, 4623), (2677, 2311), (1338, 1155)
├── Points
│ └── 'transcripts': DataFrame with shape: (28498849, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (117072, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (117072, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (118084, 2) (2D shapes)
└── Tables
└── 'table': AnnData (117072, 5001)
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("F0oeNbhFSNOMJejN") # 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/F0oeNbhFSNOMJejN
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid F0oeNbhFSNOMJejN Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["F0oeNbhFSNOMJejN0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- lung
- Condition
- small cell lung carcinoma
- Modality
- RNA
- Observations
- 117,072
- Transcripts
- 28,498,849
- Tier
- silver
- Size
- 1.2 GB
- Sample ID
- GSM9945416
- License
- unknown
- Published
- Aug 18, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB