Visium HD
Human ovary
visium-hd-three-prime-ovarian-cancer-discovery-fresh-frozen
silver Interactive viewer H&E ovarian serous adenocarcinoma No linked publication
print(sdata)
SpatialData object
├── Images
│ ├── 'Visium_HD_3prime_Human_Ovarian_Cancer_FF_full_image': DataTree[cyx] (3, 26686, 25811), (3, 13343, 12905), (3, 6671, 6452), (3, 3335, 3226), (3, 1667, 1613)
│ ├── 'Visium_HD_3prime_Human_Ovarian_Cancer_FF_hires_image': DataArray[cyx] (3, 6000, 5803)
│ └── 'Visium_HD_3prime_Human_Ovarian_Cancer_FF_lowres_image': DataArray[cyx] (3, 600, 581)
├── Shapes
│ ├── 'Visium_HD_3prime_Human_Ovarian_Cancer_FF_square_002um': GeoDataFrame shape: (7546016, 1) (2D shapes)
│ ├── 'Visium_HD_3prime_Human_Ovarian_Cancer_FF_square_008um': GeoDataFrame shape: (475742, 1) (2D shapes)
│ └── 'Visium_HD_3prime_Human_Ovarian_Cancer_FF_square_016um': GeoDataFrame shape: (120274, 1) (2D shapes)
└── Tables
├── 'square_002um': AnnData (7546016, 38606)
├── 'square_008um': AnnData (475742, 38606)
├── 'square_016um': AnnData (120274, 38606)
└── 'square_016um_hvg': AnnData (120274, 2000)
with coordinate systems:
▸ 'Visium_HD_3prime_Human_Ovarian_Cancer_FF', with elements:
Visium_HD_3prime_Human_Ovarian_Cancer_FF_full_image (Images), Visium_HD_3prime_Human_Ovarian_Cancer_FF_hires_image (Images), Visium_HD_3prime_Human_Ovarian_Cancer_FF_lowres_image (Images), Visium_HD_3prime_Human_Ovarian_Cancer_FF_square_002um (Shapes), Visium_HD_3prime_Human_Ovarian_Cancer_FF_square_008um (Shapes), Visium_HD_3prime_Human_Ovarian_Cancer_FF_square_016um (Shapes)
▸ 'Visium_HD_3prime_Human_Ovarian_Cancer_FF_downscaled_hires', with elements:
Visium_HD_3prime_Human_Ovarian_Cancer_FF_hires_image (Images), Visium_HD_3prime_Human_Ovarian_Cancer_FF_square_002um (Shapes), Visium_HD_3prime_Human_Ovarian_Cancer_FF_square_008um (Shapes), Visium_HD_3prime_Human_Ovarian_Cancer_FF_square_016um (Shapes)
▸ 'Visium_HD_3prime_Human_Ovarian_Cancer_FF_downscaled_lowres', with elements:
Visium_HD_3prime_Human_Ovarian_Cancer_FF_lowres_image (Images), Visium_HD_3prime_Human_Ovarian_Cancer_FF_square_002um (Shapes), Visium_HD_3prime_Human_Ovarian_Cancer_FF_square_008um (Shapes), Visium_HD_3prime_Human_Ovarian_Cancer_FF_square_016um (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("haOzFbJ7Bc9x7NW60001")
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("haOzFbJ7Bc9x7NW6") # 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 haOzFbJ7Bc9x7NW60001 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/haOzFbJ7Bc9x7NW6
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid haOzFbJ7Bc9x7NW6License: CC BY 4.0
Metadata
- Technology
- Visium HD
- Organism
- human
- Tissue
- ovary
- Condition
- ovarian serous adenocarcinoma
- Modality
- RNA
- Observations (bins)
- 475,742
- Tier
- silver
- Staining
- H&E
- Magnification
- 40x
- Resolution
- 25,811 × 26,686 px
- mpp
- 0.274 µm/px
- Size
- 4.6 GB
- Sample ID
- visium-hd-three-prime-ovarian-cancer-discovery-fresh-frozen
- License
- CC BY 4.0
- Published
- Oct 7, 2025
Cite this dataset
No linked publication found — please cite the data source: 10x Genomics ↗.
Source: 10x Genomics ↗ · License: CC BY 4.0 ↗ · Reprocessed to SpatialData by SpatialData-DB