10x Xenium
Human skin of body
GSM9451458
silver Interactive viewer melanoma No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 13961, 39812), (1, 6980, 19906), (1, 3490, 9953), (1, 1745, 4976), (1, 872, 2488)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (13837, 39597), (6918, 19798), (3459, 9899), (1729, 4949), (864, 2474)
│ └── 'nucleus_labels': DataTree[yx] (13327, 39580), (6663, 19790), (3331, 9895), (1665, 4947), (832, 2473)
├── Points
│ └── 'transcripts': DataFrame with shape: (52425399, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (57936, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (57936, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (54566, 2) (2D shapes)
└── Tables
└── 'table': AnnData (57936, 5001)
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) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("7DwS93Y0xAoFkd1e") # 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 Load from the CLI
# one-shot: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/7DwS93Y0xAoFkd1e
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 7DwS93Y0xAoFkd1e Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["7DwS93Y0xAoFkd1e0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- skin of body
- Condition
- melanoma
- Modality
- RNA
- Observations
- 57,936
- Transcripts
- 52,425,399
- Tier
- silver
- Size
- 1.6 GB
- Sample ID
- GSM9451458
- License
- unknown
- Published
- Sep 8, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB