10x Xenium
Human sural nerve
GSM8714493
bronze Interactive viewer polyneuropathy Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 23868, 28452), (1, 11934, 14226), (1, 5967, 7113), (1, 2983, 3556), (1, 1491, 1778)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (23086, 26068), (11543, 13034), (5771, 6517), (2885, 3258), (1442, 1629)
│ └── 'nucleus_labels': DataTree[yx] (22946, 25928), (11473, 12964), (5736, 6482), (2868, 3241), (1434, 1620)
├── Points
│ └── 'transcripts': DataFrame with shape: (714529, 10) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (16248, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (16248, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (16248, 1) (2D shapes)
└── Tables
└── 'table': AnnData (16248, 99)
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("eYfg8eggH8hllepz0000")
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("eYfg8eggH8hllepz") # 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 eYfg8eggH8hllepz0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/eYfg8eggH8hllepz
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid eYfg8eggH8hllepzLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- sural nerve
- Condition
- polyneuropathy
- Modality
- RNA
- Observations (cells)
- 16,248
- Transcripts
- 714,529
- Tier
- bronze
- Size
- 570 MB
- Sample ID
- GSM8714493
- License
- NCBI GEO policy
- Published
- Jun 28, 2025
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