10x Xenium
Mouse pancreas
GSM9921345
silver Interactive viewer pancreatic ductal adenocarcinoma No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 34078, 22869), (1, 17039, 11434), (1, 8519, 5717), (1, 4259, 2858), (1, 2129, 1429)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (34030, 22530), (17015, 11265), (8507, 5632), (4253, 2816), (2126, 1408)
│ └── 'nucleus_labels': DataTree[yx] (33984, 22498), (16992, 11249), (8496, 5624), (4248, 2812), (2124, 1406)
├── Points
│ └── 'transcripts': DataFrame with shape: (53665735, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (185750, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (185750, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (185875, 2) (2D shapes)
└── Tables
└── 'table': AnnData (185750, 475)
with coordinate systems:
▸ 'global', with elements:
morphology_mip (Images), cell_labels (Labels), nucleus_labels (Labels), transcripts (Points), cell_boundaries (Shapes), cell_circles (Shapes), nucleus_boundaries (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("KzIT3PfFngZy6zUe0000")
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("KzIT3PfFngZy6zUe") # 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 KzIT3PfFngZy6zUe0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/KzIT3PfFngZy6zUe
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid KzIT3PfFngZy6zUeLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- pancreas
- Condition
- pancreatic ductal adenocarcinoma
- Modality
- RNA
- Observations (cells)
- 185,750
- Transcripts
- 53,665,735
- Tier
- silver
- Size
- 2.2 GB
- Sample ID
- GSM9921345
- License
- NCBI GEO policy
- Published
- Aug 27, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB