10x Xenium
Human lung
GSM9509147
bronze Interactive viewer non-small cell lung carcinoma Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_focus': DataTree[cyx] (1, 20503, 22766), (1, 10251, 11383), (1, 5125, 5691), (1, 2562, 2845), (1, 1281, 1422)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (20503, 21761), (10251, 10880), (5125, 5440), (2562, 2720), (1281, 1360)
│ └── 'nucleus_labels': DataTree[yx] (20396, 21621), (10198, 10810), (5099, 5405), (2549, 2702), (1274, 1351)
├── Points
│ └── 'transcripts': DataFrame with shape: (4178612, 10) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (49518, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (49518, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (49518, 1) (2D shapes)
└── Tables
└── 'table': AnnData (49518, 289)
with coordinate systems:
▸ 'global', with elements:
morphology_focus (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("oVZyR3qAlICo9MO80000")
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("oVZyR3qAlICo9MO8") # 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 oVZyR3qAlICo9MO80000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/oVZyR3qAlICo9MO8
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid oVZyR3qAlICo9MO8License: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- lung
- Condition
- non-small cell lung carcinoma
- Modality
- RNA
- Observations (cells)
- 49,518
- Transcripts
- 4,178,612
- Tier
- bronze
- Size
- 586 MB
- Sample ID
- GSM9509147
- License
- NCBI GEO policy
- Published
- Mar 27, 2026
Cite this dataset
doi.org/10.1038/s41592-026-03089-8 ↗ BibTeX
@article{geo:GSM9509147,
doi = {10.1038/s41592-026-03089-8},
title = {GSM9509147},
year = {2026}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB