10x Xenium
Mouse lung
GSM9694496
bronze Interactive viewer Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 23890, 34119), (1, 11945, 17059), (1, 5972, 8529), (1, 2986, 4264), (1, 1493, 2132)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (23631, 32956), (11815, 16478), (5907, 8239), (2953, 4119), (1476, 2059)
│ └── 'nucleus_labels': DataTree[yx] (22538, 31735), (11269, 15867), (5634, 7933), (2817, 3966), (1408, 1983)
├── Points
│ └── 'transcripts': DataFrame with shape: (29642728, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (127188, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (127188, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (127193, 2) (2D shapes)
└── Tables
└── 'table': AnnData (127188, 5052)
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("Jbj25dTTBK11ekyY0000")
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("Jbj25dTTBK11ekyY") # 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 Jbj25dTTBK11ekyY0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/Jbj25dTTBK11ekyY
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid Jbj25dTTBK11ekyYLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- lung
- Modality
- RNA
- Observations (cells)
- 127,188
- Transcripts
- 29,642,728
- Tier
- bronze
- Size
- 1.6 GB
- Sample ID
- GSM9694496
- License
- NCBI GEO policy
- Published
- Jun 29, 2026
Cite this dataset
doi.org/10.1038/s41467-026-73516-z ↗ BibTeX
@article{geo:GSM9694496,
doi = {10.1038/s41467-026-73516-z},
title = {GSM9694496},
year = {2026}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB