10x Xenium
Human lung
GSM9837327
bronze Interactive viewer Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 13719, 11473), (1, 6859, 5736), (1, 3429, 2868), (1, 1714, 1434), (1, 857, 717)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (13621, 10959), (6810, 5479), (3405, 2739), (1702, 1369), (851, 684)
│ └── 'nucleus_labels': DataTree[yx] (13598, 10913), (6799, 5456), (3399, 2728), (1699, 1364), (849, 682)
├── Points
│ └── 'transcripts': DataFrame with shape: (773854, 11) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (13110, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (13110, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (13200, 2) (2D shapes)
└── Tables
└── 'table': AnnData (13110, 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) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("CpLEM8jYiDdAbNFZ0000")
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("CpLEM8jYiDdAbNFZ") # 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 CpLEM8jYiDdAbNFZ0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/CpLEM8jYiDdAbNFZ
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid CpLEM8jYiDdAbNFZLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- lung
- Modality
- RNA
- Observations (cells)
- 13,110
- Transcripts
- 773,854
- Tier
- bronze
- Size
- 186 MB
- Sample ID
- GSM9837327
- License
- NCBI GEO policy
- Published
- Jun 29, 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