10x Xenium
Mouse liver
GSM9928801
silver Interactive viewer liver failure No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_focus': DataTree[cyx] (4, 68065, 54059), (4, 34032, 27029), (4, 17016, 13514), (4, 8508, 6757), (4, 4254, 3378)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (68004, 53932), (34002, 26966), (17001, 13483), (8500, 6741), (4250, 3370)
│ └── 'nucleus_labels': DataTree[yx] (67963, 53932), (33981, 26966), (16990, 13483), (8495, 6741), (4247, 3370)
├── Points
│ └── 'transcripts': DataFrame with shape: (501569756, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (283108, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (283108, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (285039, 2) (2D shapes)
└── Tables
└── 'table': AnnData (283108, 5006)
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("uFyAw54uJKxv6bG60000")
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("uFyAw54uJKxv6bG6") # 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 uFyAw54uJKxv6bG60000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/uFyAw54uJKxv6bG6
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid uFyAw54uJKxv6bG6License: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- liver
- Condition
- liver failure
- Modality
- RNA
- Observations (cells)
- 283,108
- Transcripts
- 501,569,756
- Tier
- silver
- Size
- 23.9 GB
- Sample ID
- GSM9928801
- License
- NCBI GEO policy
- Published
- Sep 1, 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