10x Xenium
Human brain
GSM9886358
silver Interactive viewer glioblastoma No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 13723, 14302), (1, 6861, 7151), (1, 3430, 3575), (1, 1715, 1787), (1, 857, 893)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (13656, 14164), (6828, 7082), (3414, 3541), (1707, 1770), (853, 885)
│ └── 'nucleus_labels': DataTree[yx] (13656, 14164), (6828, 7082), (3414, 3541), (1707, 1770), (853, 885)
├── Points
│ └── 'transcripts': DataFrame with shape: (5841699, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (8016, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (8016, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (8016, 2) (2D shapes)
└── Tables
└── 'table': AnnData (8016, 5101)
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("b02mzyWt4dCMSVvh") # 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/b02mzyWt4dCMSVvh
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid b02mzyWt4dCMSVvh Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["b02mzyWt4dCMSVvh0000"])[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
- glioblastoma
- Modality
- RNA
- Observations
- 8,016
- Transcripts
- 5,841,699
- Tier
- silver
- Size
- 315 MB
- Sample ID
- GSM9886358
- License
- unknown
- Published
- Oct 1, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB