10x Xenium
Rat kidney
GSM9866603
bronze Interactive viewer acute kidney failure Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 34128, 54040), (1, 17064, 27020), (1, 8532, 13510), (1, 4266, 6755), (1, 2133, 3377)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (30593, 50682), (15296, 25341), (7648, 12670), (3824, 6335), (1912, 3167)
│ └── 'nucleus_labels': DataTree[yx] (30547, 50635), (15273, 25317), (7636, 12658), (3818, 6329), (1909, 3164)
├── Points
│ └── 'transcripts': DataFrame with shape: (51865279, 11) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (531476, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (531476, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (531476, 2) (2D shapes)
└── Tables
└── 'table': AnnData (531476, 50)
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("n8uiti0HgAjegdpP") # 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/n8uiti0HgAjegdpP
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid n8uiti0HgAjegdpP Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["n8uiti0HgAjegdpP0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- rat
- Tissue
- kidney
- Condition
- acute kidney failure
- Modality
- RNA
- Observations
- 531,476
- Transcripts
- 51,865,279
- Tier
- bronze
- Size
- 4.2 GB
- Sample ID
- GSM9866603
- License
- unknown
- Published
- Jul 10, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB