Imaging Mass Cytometry
Human kidney
S-BIAD3694:discovery:Batch12:599-1:kidney
bronze ✓ Verified publication
print(sdata)
SpatialData object
├── Images
│ └── 'img_Batch12_001_image': DataTree[cyx] (35, 749, 1435), (35, 374, 717), (35, 187, 358), (35, 93, 179), (35, 46, 89)
├── Labels
│ └── 'img_Batch12_001_cells_labels': DataTree[yx] (749, 1435), (374, 717), (187, 358), (93, 179), (46, 89)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (5831, 2) (2D shapes)
│ └── 'cell_boundaries_for_vitessce': GeoDataFrame shape: (5831, 2) (2D shapes)
└── Tables
└── 'table': AnnData (5831, 35)
with coordinate systems:
▸ 'global', with elements:
img_Batch12_001_image (Images), img_Batch12_001_cells_labels (Labels), cell_boundaries (Shapes), cell_boundaries_for_vitessce (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("31no7U1wvtWpleTx0000")
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("31no7U1wvtWpleTx") # 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 31no7U1wvtWpleTx0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/31no7U1wvtWpleTx
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 31no7U1wvtWpleTxLicense: CC0 1.0
Metadata
- Technology
- Imaging Mass Cytometry
- Organism
- human
- Tissue
- kidney
- Modality
- protein
- Observations
- 5,831
- Tier
- bronze
- Chemistry
- IMC
- Staining
- Antibodies
- Size
- 45.9 MB
- Sample ID
- S-BIAD3694:discovery:Batch12:599-1:kidney
- License
- CC0 1.0
- Published
- Aug 18, 2026
Cite this dataset
No linked publication found — please cite the data source: BioImage Archive ↗.
Source: BioImage Archive ↗ · License: CC0 1.0 ↗ · Reprocessed to SpatialData by SpatialData-DB