10x Xenium
Human skin of body
GSM9816491
bronze Interactive viewer atopic eczema Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 23904, 42631), (1, 11952, 21315), (1, 5976, 10657), (1, 2988, 5328), (1, 1494, 2664)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (22866, 40740), (11433, 20370), (5716, 10185), (2858, 5092), (1429, 2546)
│ └── 'nucleus_labels': DataTree[yx] (22821, 40694), (11410, 20347), (5705, 10173), (2852, 5086), (1426, 2543)
├── Points
│ └── 'transcripts': DataFrame with shape: (16141559, 11) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (45280, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (45280, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (45280, 2) (2D shapes)
└── Tables
└── 'table': AnnData (45280, 360)
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("nceJKOdo07khx69z0000")
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("nceJKOdo07khx69z") # 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 nceJKOdo07khx69z0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/nceJKOdo07khx69z
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid nceJKOdo07khx69zLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- skin of body
- Condition
- atopic eczema
- Modality
- RNA
- Observations (cells)
- 45,280
- Transcripts
- 16,141,559
- Tier
- bronze
- Size
- 1.4 GB
- Sample ID
- GSM9816491
- License
- NCBI GEO policy
- Published
- Sep 2, 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