10x Xenium
Human brain
GSM8672833
bronze Interactive viewer atypical teratoid rhabdoid tumor Provisional
print(sdata)
SpatialData object
├── Labels
│ ├── 'cell_labels': DataTree[yx] (62260, 53609), (31130, 26804), (15565, 13402), (7782, 6701), (3891, 3350)
│ └── 'nucleus_labels': DataTree[yx] (62213, 53574), (31106, 26787), (15553, 13393), (7776, 6696), (3888, 3348)
├── Points
│ └── 'transcripts': DataFrame with shape: (58374999, 11) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (454004, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (454004, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (454004, 2) (2D shapes)
└── Tables
└── 'table': AnnData (454004, 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("6tKBAOuUxyFJqe5a") # 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/6tKBAOuUxyFJqe5a
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 6tKBAOuUxyFJqe5a Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["6tKBAOuUxyFJqe5a0000"])[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
- 454,004
- Transcripts
- 58,374,999
- Tier
- bronze
- Size
- 2.7 GB
- Sample ID
- GSM8672833
- 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