Visium
Human breast
Spatial transcriptomic (Visium) data from invasive lobular breast cancer (ST04_531554)
bronze Interactive viewer H&E invasive lobular breast carcinoma Provisional
print(sdata)
SpatialData object
├── Images
│ ├── 'sddb_26gijlh5g6_hires_image': DataArray[cyx] (3, 1980, 2000)
│ └── 'sddb_26gijlh5g6_lowres_image': DataArray[cyx] (3, 594, 600)
├── Shapes
│ └── 'sddb_26gijlh5g6': GeoDataFrame shape: (2587, 2) (2D shapes)
└── Tables
└── 'table': AnnData (2587, 36601)
with coordinate systems:
▸ 'sddb_26gijlh5g6', with elements:
sddb_26gijlh5g6_hires_image (Images), sddb_26gijlh5g6_lowres_image (Images), sddb_26gijlh5g6 (Shapes)
▸ 'sddb_26gijlh5g6_downscaled_hires', with elements:
sddb_26gijlh5g6_hires_image (Images), sddb_26gijlh5g6 (Shapes)
▸ 'sddb_26gijlh5g6_downscaled_lowres', with elements:
sddb_26gijlh5g6_lowres_image (Images), sddb_26gijlh5g6 (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("IvqJPAG0EJqE1bqo0000")
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("IvqJPAG0EJqE1bqo") # 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 IvqJPAG0EJqE1bqo0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/IvqJPAG0EJqE1bqo
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid IvqJPAG0EJqE1bqoLicense: CC BY 4.0
Metadata
- Technology
- Visium
- Vendor
- 10x Genomics
- Organism
- human
- Tissue
- breast
- Condition
- invasive lobular breast carcinoma
- Modality
- RNA
- Observations (spots)
- 2,587
- Tier
- bronze
- Chemistry
- Visium v1
- Resolution
- 2,000 × 1,980 px
- mpp
- 3.367 µm/px
- Size
- 44.1 MB
- Sample ID
- 31429790:ST04_531554
- License
- CC BY 4.0
- Published
- Feb 27, 2026
Cite this dataset
doi.org/10.6084/m9.figshare.31429790.v1 ↗ BibTeX
@article{figshare:31429790,
doi = {10.6084/m9.figshare.31429790.v1},
title = {Spatial transcriptomic (Visium) data from invasive lobular breast cancer (ST02_511628)}
}Source: figshare.com ↗ · License: CC BY 4.0 ↗ · Reprocessed to SpatialData by SpatialData-DB