10x Xenium
Human brain
GSM8672831
bronze Interactive viewer atypical teratoid rhabdoid tumor Provisional
print(sdata)
SpatialData object
├── Labels
│ ├── 'cell_labels': DataTree[yx] (36016, 42436), (18008, 21218), (9004, 10609), (4502, 5304), (2251, 2652)
│ └── 'nucleus_labels': DataTree[yx] (35971, 42390), (17985, 21195), (8992, 10597), (4496, 5298), (2248, 2649)
├── Points
│ └── 'transcripts': DataFrame with shape: (8882685, 11) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (168003, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (168003, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (168003, 2) (2D shapes)
└── Tables
└── 'table': AnnData (168003, 475)
with coordinate systems:
▸ 'global', with elements:
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("kSQrcKczxNxA2IvG") # 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/kSQrcKczxNxA2IvG
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid kSQrcKczxNxA2IvG Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["kSQrcKczxNxA2IvG0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- brain
- Condition
- atypical teratoid rhabdoid tumor
- Modality
- RNA
- Observations
- 168,003
- Transcripts
- 8,882,685
- Tier
- bronze
- Size
- 510 MB
- Sample ID
- GSM8672831
- License
- unknown
- Published
- Jul 24, 2025
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB