10x Xenium
Mouse brain
GSM9852131
silver Interactive viewer No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 30702, 42630), (1, 15351, 21315), (1, 7675, 10657), (1, 3837, 5328), (1, 1918, 2664)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (29893, 42523), (14946, 21261), (7473, 10630), (3736, 5315), (1868, 2657)
│ └── 'nucleus_labels': DataTree[yx] (29889, 42501), (14944, 21250), (7472, 10625), (3736, 5312), (1868, 2656)
├── Points
│ └── 'transcripts': DataFrame with shape: (96227834, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (99780, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (99780, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (100097, 2) (2D shapes)
└── Tables
└── 'table': AnnData (99780, 347)
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) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("gJzaMfcWOpE0OMTT0000")
ds.elements() # inspect without downloading
sdata = ds.to_sdata() # cached locally, reused
print(sdata) Python · lamindb
Needs pip install lamindb and network access to the Lamin database, which is limited during the alpha. If it fails, use the Client tab.
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("gJzaMfcWOpE0OMTT") # stem uid: Lamin resolves it to the 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 Shell
# sddb client: download the .zarr into data/
sddb-cli download gJzaMfcWOpE0OMTT0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/gJzaMfcWOpE0OMTT
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid gJzaMfcWOpE0OMTTLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- brain
- Modality
- RNA
- Observations (cells)
- 99,780
- Transcripts
- 96,227,834
- Tier
- silver
- Size
- 3.7 GB
- Sample ID
- GSM9852131
- License
- NCBI GEO policy
- Published
- Jul 30, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB