10x Xenium
Human dentate gyrus of hippocampal formation
GSM9471165
silver Interactive viewer No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 47714, 53982), (1, 23857, 26991), (1, 11928, 13495), (1, 5964, 6747), (1, 2982, 3373)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (46807, 53943), (23403, 26971), (11701, 13485), (5850, 6742), (2925, 3371)
│ └── 'nucleus_labels': DataTree[yx] (46515, 53916), (23257, 26958), (11628, 13479), (5814, 6739), (2907, 3369)
├── Points
│ └── 'transcripts': DataFrame with shape: (253831577, 11) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (129304, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (129304, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (128219, 2) (2D shapes)
└── Tables
└── 'table': AnnData (129304, 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("rlzSfCeFcu2BywqZ0000")
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("rlzSfCeFcu2BywqZ") # 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 rlzSfCeFcu2BywqZ0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/rlzSfCeFcu2BywqZ
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid rlzSfCeFcu2BywqZLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- dentate gyrus of hippocampal formation
- Modality
- RNA
- Observations (cells)
- 129,304
- Transcripts
- 253,831,577
- Tier
- silver
- Size
- 11.7 GB
- Sample ID
- GSM9471165
- 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