Imaging Mass Cytometry
Human kidney
S-BIAD3694:discovery:Batch13:600-1:kidney
bronze ✓ Verified publication
print(sdata)
SpatialData object
├── Images
│ ├── 'img_Batch13_028_image': DataTree[cyx] (35, 853, 1700), (35, 426, 850), (35, 213, 425), (35, 106, 212), (35, 53, 106)
│ └── 'img_Batch13_029_image': DataTree[cyx] (35, 1011, 1275), (35, 505, 637), (35, 252, 318), (35, 126, 159), (35, 63, 79)
├── Labels
│ ├── 'img_Batch13_028_cells_labels': DataTree[yx] (853, 1700), (426, 850), (213, 425), (106, 212), (53, 106)
│ └── 'img_Batch13_029_cells_labels': DataTree[yx] (1011, 1275), (505, 637), (252, 318), (126, 159), (63, 79)
├── Shapes
│ ├── 'img_Batch13_028_cell_boundaries': GeoDataFrame shape: (7563, 2) (2D shapes)
│ └── 'img_Batch13_029_cell_boundaries': GeoDataFrame shape: (5947, 2) (2D shapes)
└── Tables
└── 'table': AnnData (13510, 35)
with coordinate systems:
▸ 'img_Batch13_028', with elements:
img_Batch13_028_image (Images), img_Batch13_028_cells_labels (Labels), img_Batch13_028_cell_boundaries (Shapes)
▸ 'img_Batch13_029', with elements:
img_Batch13_029_image (Images), img_Batch13_029_cells_labels (Labels), img_Batch13_029_cell_boundaries (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("1dPC3XcwoXEGveCF0000")
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("1dPC3XcwoXEGveCF") # 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 1dPC3XcwoXEGveCF0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/1dPC3XcwoXEGveCF
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 1dPC3XcwoXEGveCFLicense: CC0 1.0
Metadata
- Technology
- Imaging Mass Cytometry
- Organism
- human
- Tissue
- kidney
- Modality
- protein
- Observations (cells)
- 13,510
- Tier
- bronze
- Chemistry
- IMC
- Staining
- Antibodies
- Size
- 74.4 MB
- Sample ID
- S-BIAD3694:discovery:Batch13:600-1:kidney
- License
- CC0 1.0
- Published
- Aug 18, 2026
Cite this dataset
doi.org/10.1038/s41467-026-77210-y ↗ BibTeX
@article{bia:S-BIAD3694,
doi = {10.1038/s41467-026-77210-y},
title = {S-BIAD3694:discovery:Batch2:L108:kidney}
}Source: BioImage Archive ↗ · License: CC0 1.0 ↗ · Reprocessed to SpatialData by SpatialData-DB