10x Xenium
Mouse skin of body
GSM9544116
silver Interactive viewer basal cell carcinoma No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 17060, 53939), (1, 8530, 26969), (1, 4265, 13484), (1, 2132, 6742), (1, 1066, 3371)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (15786, 53925), (7893, 26962), (3946, 13481), (1973, 6740), (986, 3370)
│ └── 'nucleus_labels': DataTree[yx] (15753, 53914), (7876, 26957), (3938, 13478), (1969, 6739), (984, 3369)
├── Points
│ └── 'transcripts': DataFrame with shape: (68072772, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (70706, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (70706, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (71761, 2) (2D shapes)
└── Tables
└── 'table': AnnData (70706, 5106)
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("CPHDWmscmn6CNhyw") # 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/CPHDWmscmn6CNhyw
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid CPHDWmscmn6CNhyw Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["CPHDWmscmn6CNhyw0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- skin of body
- Condition
- basal cell carcinoma
- Modality
- RNA
- Observations
- 70,706
- Transcripts
- 68,072,772
- Tier
- silver
- Size
- 2.0 GB
- Sample ID
- GSM9544116
- License
- unknown
- Published
- Sep 12, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB