10x Xenium
Human lung
GSM9837331
bronze Interactive viewer Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 20523, 17112), (1, 10261, 8556), (1, 5130, 4278), (1, 2565, 2139), (1, 1282, 1069)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (19062, 16859), (9531, 8429), (4765, 4214), (2382, 2107), (1191, 1053)
│ └── 'nucleus_labels': DataTree[yx] (19017, 16828), (9508, 8414), (4754, 4207), (2377, 2103), (1188, 1051)
├── Points
│ └── 'transcripts': DataFrame with shape: (4997250, 11) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (60123, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (60123, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (60640, 2) (2D shapes)
└── Tables
└── 'table': AnnData (60123, 289)
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("5bz3M0fBMLp7RAxh") # 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/5bz3M0fBMLp7RAxh
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 5bz3M0fBMLp7RAxh Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["5bz3M0fBMLp7RAxh0000"])[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
- Modality
- RNA
- Observations
- 60,123
- Transcripts
- 4,997,250
- Tier
- bronze
- Size
- 578 MB
- Sample ID
- GSM9837331
- License
- unknown
- Published
- Jun 29, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB