Imaging Mass Cytometry
Human kidney
S-BIAD3694:discovery:Batch5:L105:kidney
bronze ✓ Verified publication
print(sdata)
SpatialData object
├── Images
│ ├── 'img_Batch5_007_image': DataTree[cyx] (35, 1005, 313), (35, 502, 156), (35, 251, 78), (35, 125, 39), (35, 62, 19)
│ └── 'img_Batch5_008_image': DataTree[cyx] (35, 2440, 403), (35, 1220, 201), (35, 610, 100), (35, 305, 50), (35, 152, 25)
├── Labels
│ ├── 'img_Batch5_007_cells_labels': DataTree[yx] (1005, 313), (502, 156), (251, 78), (125, 39), (62, 19)
│ └── 'img_Batch5_008_cells_labels': DataTree[yx] (2440, 403), (1220, 201), (610, 100), (305, 50), (152, 25)
├── Shapes
│ ├── 'img_Batch5_007_cell_boundaries': GeoDataFrame shape: (1480, 2) (2D shapes)
│ └── 'img_Batch5_008_cell_boundaries': GeoDataFrame shape: (5246, 2) (2D shapes)
└── Tables
└── 'table': AnnData (6726, 35)
with coordinate systems:
▸ 'img_Batch5_007', with elements:
img_Batch5_007_image (Images), img_Batch5_007_cells_labels (Labels), img_Batch5_007_cell_boundaries (Shapes)
▸ 'img_Batch5_008', with elements:
img_Batch5_008_image (Images), img_Batch5_008_cells_labels (Labels), img_Batch5_008_cell_boundaries (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("HPLVQv5V8Glnorgq0000")
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("HPLVQv5V8Glnorgq") # 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 HPLVQv5V8Glnorgq0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/HPLVQv5V8Glnorgq
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid HPLVQv5V8GlnorgqLicense: CC0 1.0
Metadata
- Technology
- Imaging Mass Cytometry
- Organism
- human
- Tissue
- kidney
- Modality
- protein
- Observations (cells)
- 6,726
- Tier
- bronze
- Chemistry
- IMC
- Staining
- Antibodies
- Size
- 80.4 MB
- Sample ID
- S-BIAD3694:discovery:Batch5:L105: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