10x Xenium
Human brain
GSM9886365
silver Interactive viewer glioblastoma No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 30687, 19974), (1, 15343, 9987), (1, 7671, 4993), (1, 3835, 2496), (1, 1917, 1248)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (30652, 19950), (15326, 9975), (7663, 4987), (3831, 2493), (1915, 1246)
│ └── 'nucleus_labels': DataTree[yx] (30652, 19950), (15326, 9975), (7663, 4987), (3831, 2493), (1915, 1246)
├── Points
│ └── 'transcripts': DataFrame with shape: (21203097, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (17997, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (17997, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (17997, 2) (2D shapes)
└── Tables
└── 'table': AnnData (17997, 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("8YxVQzfU2jZ7jKFR") # 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/8YxVQzfU2jZ7jKFR
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 8YxVQzfU2jZ7jKFR Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["8YxVQzfU2jZ7jKFR0000"])[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
- 17,997
- Transcripts
- 21,203,097
- Tier
- silver
- Size
- 935 MB
- Sample ID
- GSM9886365
- 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