10x Xenium
Mouse brain
GSM9806290
silver Interactive viewer No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_focus': DataTree[cyx] (4, 91857, 48241), (4, 45928, 24120), (4, 22964, 12060), (4, 11482, 6030), (4, 5741, 3015)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (89209, 47801), (44604, 23900), (22302, 11950), (11151, 5975), (5575, 2987)
│ └── 'nucleus_labels': DataTree[yx] (88204, 47774), (44102, 23887), (22051, 11943), (11025, 5971), (5512, 2985)
├── Points
│ └── 'transcripts': DataFrame with shape: (32787538, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (211018, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (211018, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (211339, 2) (2D shapes)
└── Tables
└── 'table': AnnData (211018, 247)
with coordinate systems:
▸ 'global', with elements:
morphology_focus (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("m9i7vtiXI3u1OOL90000")
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("m9i7vtiXI3u1OOL9") # 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 m9i7vtiXI3u1OOL90000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/m9i7vtiXI3u1OOL9
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid m9i7vtiXI3u1OOL9License: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- brain
- Modality
- RNA
- Observations (cells)
- 211,018
- Transcripts
- 32,787,538
- Tier
- silver
- Size
- 8.8 GB
- Sample ID
- GSM9806290
- License
- NCBI GEO policy
- Published
- Jun 17, 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