Imaging Mass Cytometry
Human kidney
S-BIAD3694:discovery:Batch2:AIN-01-0214:kidney
bronze acute tubulointerstitial nephritis ✓ Verified publication
print(sdata)
SpatialData object
├── Images
│ ├── 'img_Batch2_001_image': DataTree[cyx] (35, 2200, 659), (35, 1100, 329), (35, 550, 164), (35, 275, 82), (35, 137, 41)
│ ├── 'img_Batch2_002_image': DataTree[cyx] (35, 1545, 652), (35, 772, 326), (35, 386, 163), (35, 193, 81), (35, 96, 40)
│ ├── 'img_Batch2_003_image': DataTree[cyx] (35, 1769, 654), (35, 884, 327), (35, 442, 163), (35, 221, 81), (35, 110, 40)
│ ├── 'img_Batch2_004_image': DataTree[cyx] (35, 450, 1061), (35, 225, 530), (35, 112, 265), (35, 56, 132), (35, 28, 66)
│ ├── 'img_Batch2_005_image': DataTree[cyx] (35, 1389, 833), (35, 694, 416), (35, 347, 208), (35, 173, 104), (35, 86, 52)
│ └── 'img_Batch2_006_image': DataTree[cyx] (35, 1252, 522), (35, 626, 261), (35, 313, 130), (35, 156, 65), (35, 78, 32)
├── Labels
│ ├── 'img_Batch2_001_cells_labels': DataTree[yx] (2200, 659), (1100, 329), (550, 164), (275, 82), (137, 41)
│ ├── 'img_Batch2_002_cells_labels': DataTree[yx] (1545, 652), (772, 326), (386, 163), (193, 81), (96, 40)
│ ├── 'img_Batch2_003_cells_labels': DataTree[yx] (1769, 654), (884, 327), (442, 163), (221, 81), (110, 40)
│ ├── 'img_Batch2_004_cells_labels': DataTree[yx] (450, 1061), (225, 530), (112, 265), (56, 132), (28, 66)
│ ├── 'img_Batch2_005_cells_labels': DataTree[yx] (1389, 833), (694, 416), (347, 208), (173, 104), (86, 52)
│ └── 'img_Batch2_006_cells_labels': DataTree[yx] (1252, 522), (626, 261), (313, 130), (156, 65), (78, 32)
├── Shapes
│ ├── 'img_Batch2_001_cell_boundaries': GeoDataFrame shape: (9824, 2) (2D shapes)
│ ├── 'img_Batch2_002_cell_boundaries': GeoDataFrame shape: (6346, 2) (2D shapes)
│ ├── 'img_Batch2_003_cell_boundaries': GeoDataFrame shape: (6585, 2) (2D shapes)
│ ├── 'img_Batch2_004_cell_boundaries': GeoDataFrame shape: (3258, 2) (2D shapes)
│ ├── 'img_Batch2_005_cell_boundaries': GeoDataFrame shape: (3862, 2) (2D shapes)
│ └── 'img_Batch2_006_cell_boundaries': GeoDataFrame shape: (2403, 2) (2D shapes)
└── Tables
└── 'table': AnnData (32278, 35)
with coordinate systems:
▸ 'img_Batch2_001', with elements:
img_Batch2_001_image (Images), img_Batch2_001_cells_labels (Labels), img_Batch2_001_cell_boundaries (Shapes)
▸ 'img_Batch2_002', with elements:
img_Batch2_002_image (Images), img_Batch2_002_cells_labels (Labels), img_Batch2_002_cell_boundaries (Shapes)
▸ 'img_Batch2_003', with elements:
img_Batch2_003_image (Images), img_Batch2_003_cells_labels (Labels), img_Batch2_003_cell_boundaries (Shapes)
▸ 'img_Batch2_004', with elements:
img_Batch2_004_image (Images), img_Batch2_004_cells_labels (Labels), img_Batch2_004_cell_boundaries (Shapes)
▸ 'img_Batch2_005', with elements:
img_Batch2_005_image (Images), img_Batch2_005_cells_labels (Labels), img_Batch2_005_cell_boundaries (Shapes)
▸ 'img_Batch2_006', with elements:
img_Batch2_006_image (Images), img_Batch2_006_cells_labels (Labels), img_Batch2_006_cell_boundaries (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("C6xuqfRu9TUeMX6N0000")
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("C6xuqfRu9TUeMX6N") # 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 C6xuqfRu9TUeMX6N0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/C6xuqfRu9TUeMX6N
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid C6xuqfRu9TUeMX6NLicense: CC0 1.0
Metadata
- Technology
- Imaging Mass Cytometry
- Organism
- human
- Tissue
- kidney
- Condition
- acute tubulointerstitial nephritis
- Modality
- protein
- Observations (cells)
- 32,278
- Tier
- bronze
- Chemistry
- IMC
- Staining
- Antibodies
- Size
- 181 MB
- Sample ID
- S-BIAD3694:discovery:Batch2:AIN-01-0214: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