10x Xenium
Human liver
GSM9815454
silver Interactive viewer colorectal carcinoma No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 23888, 28478), (1, 11944, 14239), (1, 5972, 7119), (1, 2986, 3559), (1, 1493, 1779)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (23705, 27496), (11852, 13748), (5926, 6874), (2963, 3437), (1481, 1718)
│ └── 'nucleus_labels': DataTree[yx] (23679, 27451), (11839, 13725), (5919, 6862), (2959, 3431), (1479, 1715)
├── Points
│ └── 'transcripts': DataFrame with shape: (63908969, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (80036, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (80036, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (80757, 2) (2D shapes)
└── Tables
└── 'table': AnnData (80036, 462)
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("bD2dLCN9cESWKMyq0000")
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("bD2dLCN9cESWKMyq") # 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 bD2dLCN9cESWKMyq0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/bD2dLCN9cESWKMyq
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid bD2dLCN9cESWKMyqLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- liver
- Condition
- colorectal carcinoma
- Modality
- RNA
- Observations (cells)
- 80,036
- Transcripts
- 63,908,969
- Tier
- silver
- Size
- 2.1 GB
- Sample ID
- GSM9815454
- License
- NCBI GEO policy
- Published
- Aug 3, 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