Imaging Mass Cytometry
Human kidney
S-BIAD3694:discovery:Batch21:AIN-02-0057:kidney
bronze acute tubulointerstitial nephritis ✓ Verified publication
print(sdata)
SpatialData object
├── Images
│ ├── 'img_Batch21_001_image': DataTree[cyx] (35, 1505, 796), (35, 752, 398), (35, 376, 199), (35, 188, 99), (35, 94, 49)
│ ├── 'img_Batch21_002_image': DataTree[cyx] (35, 1694, 1000), (35, 847, 500), (35, 423, 250), (35, 211, 125), (35, 105, 62)
│ ├── 'img_Batch21_003_image': DataTree[cyx] (35, 1789, 963), (35, 894, 481), (35, 447, 240), (35, 223, 120), (35, 111, 60)
│ └── 'img_Batch21_004_image': DataTree[cyx] (35, 3944, 886), (35, 1972, 443), (35, 986, 221), (35, 493, 110), (35, 246, 55)
├── Labels
│ ├── 'img_Batch21_001_cells_labels': DataTree[yx] (1505, 796), (752, 398), (376, 199), (188, 99), (94, 49)
│ ├── 'img_Batch21_002_cells_labels': DataTree[yx] (1694, 1000), (847, 500), (423, 250), (211, 125), (105, 62)
│ ├── 'img_Batch21_003_cells_labels': DataTree[yx] (1789, 963), (894, 481), (447, 240), (223, 120), (111, 60)
│ └── 'img_Batch21_004_cells_labels': DataTree[yx] (3944, 886), (1972, 443), (986, 221), (493, 110), (246, 55)
├── Shapes
│ ├── 'img_Batch21_001_cell_boundaries': GeoDataFrame shape: (5505, 2) (2D shapes)
│ ├── 'img_Batch21_002_cell_boundaries': GeoDataFrame shape: (7125, 2) (2D shapes)
│ ├── 'img_Batch21_003_cell_boundaries': GeoDataFrame shape: (8958, 2) (2D shapes)
│ └── 'img_Batch21_004_cell_boundaries': GeoDataFrame shape: (16218, 2) (2D shapes)
└── Tables
└── 'table': AnnData (37806, 35)
with coordinate systems:
▸ 'img_Batch21_001', with elements:
img_Batch21_001_image (Images), img_Batch21_001_cells_labels (Labels), img_Batch21_001_cell_boundaries (Shapes)
▸ 'img_Batch21_002', with elements:
img_Batch21_002_image (Images), img_Batch21_002_cells_labels (Labels), img_Batch21_002_cell_boundaries (Shapes)
▸ 'img_Batch21_003', with elements:
img_Batch21_003_image (Images), img_Batch21_003_cells_labels (Labels), img_Batch21_003_cell_boundaries (Shapes)
▸ 'img_Batch21_004', with elements:
img_Batch21_004_image (Images), img_Batch21_004_cells_labels (Labels), img_Batch21_004_cell_boundaries (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("fSzfsiyS4zm2bsSx0000")
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("fSzfsiyS4zm2bsSx") # 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 fSzfsiyS4zm2bsSx0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/fSzfsiyS4zm2bsSx
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid fSzfsiyS4zm2bsSxLicense: CC0 1.0
Metadata
- Technology
- Imaging Mass Cytometry
- Organism
- human
- Tissue
- kidney
- Condition
- acute tubulointerstitial nephritis
- Modality
- protein
- Observations (cells)
- 37,806
- Tier
- bronze
- Chemistry
- IMC
- Staining
- Antibodies
- Size
- 302 MB
- Sample ID
- S-BIAD3694:discovery:Batch21:AIN-02-0057: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