MIBI-TOF
Human pancreas
15109931:2022-09-11T09-07-00_BMS_Pt1_S2_R1_tile5x5
bronze Under review pancreatic ductal adenocarcinoma ✓ Verified publication
print(sdata)
SpatialData object
├── Images
│ └── '2022-09-11T09-07-00_BMS_Pt1_S2_R1_tile5x5_image': DataTree[cyx] (27, 2560, 2560), (27, 1280, 1280), (27, 640, 640), (27, 320, 320), (27, 160, 160)
├── Labels
│ └── '2022-09-11T09-07-00_BMS_Pt1_S2_R1_tile5x5_whole_cell_labels': DataTree[yx] (2560, 2560), (1280, 1280), (640, 640), (320, 320), (160, 160)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (29529, 2) (2D shapes)
│ └── 'cell_boundaries_for_vitessce': GeoDataFrame shape: (29529, 2) (2D shapes)
└── Tables
└── 'table': AnnData (29529, 27)
with coordinate systems:
▸ 'global', with elements:
2022-09-11T09-07-00_BMS_Pt1_S2_R1_tile5x5_image (Images), 2022-09-11T09-07-00_BMS_Pt1_S2_R1_tile5x5_whole_cell_labels (Labels), cell_boundaries (Shapes), cell_boundaries_for_vitessce (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("z3lNeLrvkOAgfV5i0000")
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("z3lNeLrvkOAgfV5i") # 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 z3lNeLrvkOAgfV5i0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/z3lNeLrvkOAgfV5i
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid z3lNeLrvkOAgfV5iLicense: CC BY 4.0
Metadata
- Technology
- MIBI-TOF
- Organism
- human
- Tissue
- pancreas
- Condition
- pancreatic ductal adenocarcinoma
- Modality
- protein
- Observations (cells)
- 29,529
- Tier
- bronze
- Chemistry
- MIBI
- Staining
- Antibodies
- Size
- 264 MB
- Sample ID
- 15109931:2022-09-11T09-07-00_BMS_Pt1_S2_R1_tile5x5
- License
- CC BY 4.0
- Published
- Mar 30, 2025
- Review
- tissue pancreas inferred; tumour site of each scan not stated
Cite this dataset
doi.org/10.1016/j.mcpro.2026.101697 ↗ BibTeX
@article{zenodo:15109931,
doi = {10.1016/j.mcpro.2026.101697},
title = {15109931:2022-09-12T10-33-35_BMS_Pt3_S2_R1_tile5x5},
year = {2026}
}Source: zenodo.org ↗ · License: CC BY 4.0 ↗ · Reprocessed to SpatialData by SpatialData-DB