10x Xenium
Mouse brain
GSM9924905
silver Interactive viewer No linked publication
print(sdata)
SpatialData object
├── Labels
│ ├── 'cell_labels': DataTree[yx] (27306, 25548), (13653, 12774), (6826, 6387), (3413, 3193), (1706, 1596)
│ └── 'nucleus_labels': DataTree[yx] (27142, 25032), (13571, 12516), (6785, 6258), (3392, 3129), (1696, 1564)
├── Points
│ └── 'transcripts': DataFrame with shape: (60188544, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (60698, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (60698, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (60330, 2) (2D shapes)
└── Tables
└── 'table': AnnData (60698, 345)
with coordinate systems:
▸ 'global', with elements:
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("mnQLhgyl0oggr5a60000")
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("mnQLhgyl0oggr5a6") # 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 mnQLhgyl0oggr5a60000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/mnQLhgyl0oggr5a6
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid mnQLhgyl0oggr5a6License: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- brain
- Modality
- RNA
- Observations (cells)
- 60,698
- Transcripts
- 60,188,544
- Tier
- silver
- Size
- 1.2 GB
- Sample ID
- GSM9924905
- License
- NCBI GEO policy
- Published
- Aug 21, 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