10x Xenium
Mouse brain
GSM9852136
silver Interactive viewer No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 27322, 45504), (1, 13661, 22752), (1, 6830, 11376), (1, 3415, 5688), (1, 1707, 2844)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (27310, 44258), (13655, 22129), (6827, 11064), (3413, 5532), (1706, 2766)
│ └── 'nucleus_labels': DataTree[yx] (27290, 43923), (13645, 21961), (6822, 10980), (3411, 5490), (1705, 2745)
├── Points
│ └── 'transcripts': DataFrame with shape: (99188178, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (111646, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (111646, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (112441, 2) (2D shapes)
└── Tables
└── 'table': AnnData (111646, 347)
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("NORVOVHX69FaH9vF0000")
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("NORVOVHX69FaH9vF") # 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 NORVOVHX69FaH9vF0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/NORVOVHX69FaH9vF
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid NORVOVHX69FaH9vFLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- brain
- Modality
- RNA
- Observations (cells)
- 111,646
- Transcripts
- 99,188,178
- Tier
- silver
- Size
- 3.9 GB
- Sample ID
- GSM9852136
- License
- NCBI GEO policy
- Published
- Jul 30, 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