10x Xenium
Human lung
GSM9714912
silver Interactive viewer chronic obstructive pulmonary disease No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 74854, 22960), (1, 37427, 11480), (1, 18713, 5740), (1, 9356, 2870), (1, 4678, 1435)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (74004, 22292), (37002, 11146), (18501, 5573), (9250, 2786), (4625, 1393)
│ └── 'nucleus_labels': DataTree[yx] (73958, 21687), (36979, 10843), (18489, 5421), (9244, 2710), (4622, 1355)
├── Points
│ └── 'transcripts': DataFrame with shape: (48116464, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (279263, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (279263, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (280127, 2) (2D shapes)
└── Tables
└── 'table': AnnData (279263, 387)
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) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("txh1nLwp3gxpkPOk0000")
ds.elements() # inspect without downloading
sdata = ds.to_sdata() # cached locally, reused
print(sdata) Python · lamindb
Needs pip install lamindb and network access to the Lamin database, which is limited during the alpha. If it fails, use the Client tab.
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("txh1nLwp3gxpkPOk") # stem uid: Lamin resolves it to the 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 Shell
# sddb client: download the .zarr into data/
sddb-cli download txh1nLwp3gxpkPOk0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/txh1nLwp3gxpkPOk
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid txh1nLwp3gxpkPOkLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- lung
- Condition
- chronic obstructive pulmonary disease
- Modality
- RNA
- Observations (cells)
- 279,263
- Transcripts
- 48,116,464
- Tier
- silver
- Size
- 3.7 GB
- Sample ID
- GSM9714912
- License
- NCBI GEO policy
- Published
- Aug 9, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB