10x Xenium
Human skin of body
GSM9451454
silver Interactive viewer melanoma No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 13839, 25671), (1, 6919, 12835), (1, 3459, 6417), (1, 1729, 3208), (1, 864, 1604)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (13475, 25637), (6737, 12818), (3368, 6409), (1684, 3204), (842, 1602)
│ └── 'nucleus_labels': DataTree[yx] (13409, 25612), (6704, 12806), (3352, 6403), (1676, 3201), (838, 1600)
├── Points
│ └── 'transcripts': DataFrame with shape: (34112271, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (44029, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (44029, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (43880, 2) (2D shapes)
└── Tables
└── 'table': AnnData (44029, 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) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("NIkmqFKMyVDS510k0000")
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("NIkmqFKMyVDS510k") # 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 NIkmqFKMyVDS510k0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/NIkmqFKMyVDS510k
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid NIkmqFKMyVDS510kLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- skin of body
- Condition
- melanoma
- Modality
- RNA
- Observations (cells)
- 44,029
- Transcripts
- 34,112,271
- Tier
- silver
- Size
- 1.2 GB
- Sample ID
- GSM9451454
- License
- NCBI GEO policy
- Published
- Sep 8, 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