10x Xenium
Mouse urethra
GSM8981121
bronze Interactive viewer Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_focus': DataTree[cyx] (1, 105345, 53965), (1, 52672, 26982), (1, 26336, 13491), (1, 13168, 6745), (1, 6584, 3372)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (102838, 53965), (51419, 26982), (25709, 13491), (12854, 6745), (6427, 3372)
│ └── 'nucleus_labels': DataTree[yx] (102792, 53922), (51396, 26961), (25698, 13480), (12849, 6740), (6424, 3370)
├── Points
│ └── 'transcripts': DataFrame with shape: (48158883, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (246172, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (246172, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (246172, 2) (2D shapes)
└── Tables
└── 'table': AnnData (246172, 479)
with coordinate systems:
▸ 'global', with elements:
morphology_focus (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("Alq1JW6CGwtaLNnW") # 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/Alq1JW6CGwtaLNnW
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid Alq1JW6CGwtaLNnW Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["Alq1JW6CGwtaLNnW0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- urethra
- Modality
- RNA
- Observations
- 246,172
- Transcripts
- 48,158,883
- Tier
- bronze
- Size
- 3.5 GB
- Sample ID
- GSM8981121
- License
- unknown
- Published
- Sep 11, 2025
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB