10x Xenium
Human dentate gyrus of hippocampal formation
GSM9471164
silver Interactive viewer No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 58004, 54180), (1, 29002, 27090), (1, 14501, 13545), (1, 7250, 6772), (1, 3625, 3386)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (57541, 54141), (28770, 27070), (14385, 13535), (7192, 6767), (3596, 3383)
│ └── 'nucleus_labels': DataTree[yx] (57287, 54084), (28643, 27042), (14321, 13521), (7160, 6760), (3580, 3380)
├── Points
│ └── 'transcripts': DataFrame with shape: (330869553, 11) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (117594, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (117594, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (116597, 2) (2D shapes)
└── Tables
└── 'table': AnnData (117594, 5011)
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("36JDOmS5yVVxXbfa0000")
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("36JDOmS5yVVxXbfa") # 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 36JDOmS5yVVxXbfa0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/36JDOmS5yVVxXbfa
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 36JDOmS5yVVxXbfaLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- dentate gyrus of hippocampal formation
- Modality
- RNA
- Observations (cells)
- 117,594
- Transcripts
- 330,869,553
- Tier
- silver
- Size
- 14.7 GB
- Sample ID
- GSM9471164
- License
- NCBI GEO policy
- Published
- Jan 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