10x Xenium
Mouse brain
GSM9852128
silver Interactive viewer No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 27318, 45474), (1, 13659, 22737), (1, 6829, 11368), (1, 3414, 5684), (1, 1707, 2842)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (27297, 45276), (13648, 22638), (6824, 11319), (3412, 5659), (1706, 2829)
│ └── 'nucleus_labels': DataTree[yx] (27271, 45247), (13635, 22623), (6817, 11311), (3408, 5655), (1704, 2827)
├── Points
│ └── 'transcripts': DataFrame with shape: (81177069, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (102548, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (102548, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (103101, 2) (2D shapes)
└── Tables
└── 'table': AnnData (102548, 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("sD4g1XsKw5RFZGTz0000")
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("sD4g1XsKw5RFZGTz") # 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 sD4g1XsKw5RFZGTz0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/sD4g1XsKw5RFZGTz
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid sD4g1XsKw5RFZGTzLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- brain
- Modality
- RNA
- Observations (cells)
- 102,548
- Transcripts
- 81,177,069
- Tier
- silver
- Size
- 3.5 GB
- Sample ID
- GSM9852128
- 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