Visium
Human palatine tonsil
GSM8789934
bronze Interactive viewer H&E oropharynx squamous cell carcinoma Provisional
print(sdata)
SpatialData object
├── Images
│ ├── 'GSM8789934_ST3_hires_image': DataArray[cyx] (3, 1841, 2000)
│ └── 'GSM8789934_ST3_lowres_image': DataArray[cyx] (3, 552, 600)
├── Shapes
│ └── 'GSM8789934_ST3': GeoDataFrame shape: (4952, 2) (2D shapes)
└── Tables
└── 'table': AnnData (4952, 18085)
with coordinate systems:
▸ 'GSM8789934_ST3', with elements:
GSM8789934_ST3_hires_image (Images), GSM8789934_ST3_lowres_image (Images), GSM8789934_ST3 (Shapes)
▸ 'GSM8789934_ST3_downscaled_hires', with elements:
GSM8789934_ST3_hires_image (Images), GSM8789934_ST3 (Shapes)
▸ 'GSM8789934_ST3_downscaled_lowres', with elements:
GSM8789934_ST3_lowres_image (Images), GSM8789934_ST3 (Shapes) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("ZfkTzJTedE7UdoJm") # 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 Load from the CLI
# one-shot: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/ZfkTzJTedE7UdoJm
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid ZfkTzJTedE7UdoJm Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["ZfkTzJTedE7UdoJm0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openPart of collection
Intratumoral spatiotemporal heterogeneity of HPV status in HPV-associated oropharyngeal squamous cell carcinoma with clinical record→ 3 datasets · replicates
Metadata
- Technology
- Visium
- Organism
- human
- Tissue
- palatine tonsil
- Condition
- oropharynx squamous cell carcinoma
- Modality
- RNA
- Observations
- 4,952
- Tier
- bronze
- Chemistry
- Visium v1
- Magnification
- other
- Resolution
- 2,000 × 1,841 px
- mpp
- 5.554 µm/px
- Size
- 107 MB
- Sample ID
- GSM8789934
- License
- unknown
- Published
- May 20, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB