MIBI-TOF

Human pancreas

15109931:2022-10-04T16-23-25_BMS_Pt4_S1_R1_tile5x5

bronze Under review pancreatic ductal adenocarcinoma ✓ Verified publication

MIBI-TOF

Preview Client Lamin CLI

print(sdata)

SpatialData object
├── Images
│     └── '2022-10-04T16-23-25_BMS_Pt4_S1_R1_tile5x5_image': DataTree[cyx] (27, 2880, 2810), (27, 1440, 1405), (27, 720, 702), (27, 360, 351), (27, 180, 175)
├── Labels
│     └── '2022-10-04T16-23-25_BMS_Pt4_S1_R1_tile5x5_whole_cell_labels': DataTree[yx] (2880, 2810), (1440, 1405), (720, 702), (360, 351), (180, 175)
├── Shapes
│     ├── 'cell_boundaries': GeoDataFrame shape: (22883, 2) (2D shapes)
│     └── 'cell_boundaries_for_vitessce': GeoDataFrame shape: (22883, 2) (2D shapes)
└── Tables
      └── 'table': AnnData (22883, 27)
with coordinate systems:
    ▸ 'global', with elements:
        2022-10-04T16-23-25_BMS_Pt4_S1_R1_tile5x5_image (Images), 2022-10-04T16-23-25_BMS_Pt4_S1_R1_tile5x5_whole_cell_labels (Labels), cell_boundaries (Shapes), cell_boundaries_for_vitessce (Shapes)

Install (Python 3.12+) Docs →

Python · sddb client

from sddb import Catalog

ds = Catalog().dataset("wvlgibd5fUV1Wazy0000")
ds.elements()          # inspect without downloading
sdata = ds.to_sdata()  # cached locally, reused
print(sdata)

Install (Python 3.12+) Docs →

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("wvlgibd5fUV1Wazy")   # 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

Install (Python 3.12+) Docs →

Shell

# sddb client: download the .zarr into data/
sddb-cli download wvlgibd5fUV1Wazy0000 --dest data/

# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/wvlgibd5fUV1Wazy

# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid wvlgibd5fUV1Wazy

Install (Python 3.12+) Docs →

License: CC BY 4.0

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Part of collection

zenodo-15109931→

39 datasets · publication

Metadata

Technology: MIBI-TOF
Organism: human
Tissue: pancreas
Condition: pancreatic ductal adenocarcinoma
Modality: protein
Observations (cells): 22,883
Tier: bronze
Chemistry: MIBI
Staining: Antibodies
Size: 246 MB
Sample ID: 15109931:2022-10-04T16-23-25_BMS_Pt4_S1_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