Visium
Human bile duct
GSM9452694
silver Interactive viewer H&E cholangiocarcinoma No linked publication
print(sdata)
SpatialData object
├── Images
│ ├── 'GSM9452694_sample_44_pre_hires_image': DataArray[cyx] (3, 2000, 1903)
│ └── 'GSM9452694_sample_44_pre_lowres_image': DataArray[cyx] (3, 600, 571)
├── Shapes
│ └── 'GSM9452694_sample_44_pre': GeoDataFrame shape: (1274, 2) (2D shapes)
└── Tables
└── 'table': AnnData (1274, 33538)
with coordinate systems:
▸ 'GSM9452694_sample_44_pre', with elements:
GSM9452694_sample_44_pre_hires_image (Images), GSM9452694_sample_44_pre_lowres_image (Images), GSM9452694_sample_44_pre (Shapes)
▸ 'GSM9452694_sample_44_pre_downscaled_hires', with elements:
GSM9452694_sample_44_pre_hires_image (Images), GSM9452694_sample_44_pre (Shapes)
▸ 'GSM9452694_sample_44_pre_downscaled_lowres', with elements:
GSM9452694_sample_44_pre_lowres_image (Images), GSM9452694_sample_44_pre (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("3wohBgRY5NDkf9jJ0001")
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("3wohBgRY5NDkf9jJ") # 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 3wohBgRY5NDkf9jJ0001 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/3wohBgRY5NDkf9jJ
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 3wohBgRY5NDkf9jJLicense: NCBI GEO policy
Part of collection
A Phase II Trial of Pembrolizumab plus Granulocyte Macrophage Colony Stimulating Factor in Advanced Biliary Cancer [Spatial Transcriptomics]→ 12 datasets · time course
Metadata
- Technology
- Visium
- Organism
- human
- Tissue
- bile duct
- Condition
- cholangiocarcinoma
- Modality
- RNA
- Observations (spots)
- 1,274
- Tier
- silver
- Chemistry
- Visium v1
- Resolution
- 1,903 × 2,000 px
- mpp
- 3.797 µm/px
- Size
- 5.8 MB
- Sample ID
- GSM9452694
- License
- NCBI GEO policy
- Published
- Mar 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