Visium HD
Human lymph node
GSM8658293
bronze Interactive viewer H&E prostate cancer Provisional
print(sdata)
SpatialData object
├── Images
│ ├── 'GSM8658293_SI_38469_hires_image': DataArray[cyx] (3, 5795, 6000)
│ └── 'GSM8658293_SI_38469_lowres_image': DataArray[cyx] (3, 580, 600)
├── Shapes
│ ├── 'GSM8658293_SI_38469_square_008um': GeoDataFrame shape: (162379, 1) (2D shapes)
│ └── 'GSM8658293_SI_38469_square_008um_for_vitessce': GeoDataFrame shape: (162379, 2) (2D shapes)
└── Tables
└── 'square_008um': AnnData (162379, 18085)
with coordinate systems:
▸ 'GSM8658293_SI_38469', with elements:
GSM8658293_SI_38469_hires_image (Images), GSM8658293_SI_38469_lowres_image (Images), GSM8658293_SI_38469_square_008um (Shapes), GSM8658293_SI_38469_square_008um_for_vitessce (Shapes)
▸ 'GSM8658293_SI_38469_downscaled_hires', with elements:
GSM8658293_SI_38469_hires_image (Images), GSM8658293_SI_38469_square_008um (Shapes), GSM8658293_SI_38469_square_008um_for_vitessce (Shapes)
▸ 'GSM8658293_SI_38469_downscaled_lowres', with elements:
GSM8658293_SI_38469_lowres_image (Images), GSM8658293_SI_38469_square_008um (Shapes), GSM8658293_SI_38469_square_008um_for_vitessce (Shapes) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("HiYzMrU5llDCaNSz") # 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/HiYzMrU5llDCaNSz
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid HiYzMrU5llDCaNSz Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["HiYzMrU5llDCaNSz0002"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openPart of collection
CDK12/13 inactivation triggers STING-mediated antitumor immunity in preclinical models→ 4 datasets · comparison
Metadata
- Technology
- Visium HD
- Organism
- human
- Tissue
- lymph node
- Condition
- prostate cancer
- Modality
- RNA
- Observations
- 162,379
- Tier
- bronze
- Resolution
- 6,000 × 5,795 px
- mpp
- 1.603 µm/px
- Size
- 248 MB
- Sample ID
- GSM8658293
- License
- unknown
- Published
- Jun 23, 2025
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB