10x Xenium
Mouse pancreas
GSM9433817
bronze Interactive viewer Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 20486, 19943), (1, 10243, 9971), (1, 5121, 4985), (1, 2560, 2492), (1, 1280, 1246)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (19235, 18766), (9617, 9383), (4808, 4691), (2404, 2345), (1202, 1172)
│ └── 'nucleus_labels': DataTree[yx] (19096, 18628), (9548, 9314), (4774, 4657), (2387, 2328), (1193, 1164)
├── Points
│ └── 'transcripts': DataFrame with shape: (18609971, 10) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (107097, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (107097, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (107097, 1) (2D shapes)
└── Tables
└── 'table': AnnData (107097, 480)
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("toKjGfkiyIlo9VJM0000")
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("toKjGfkiyIlo9VJM") # 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 toKjGfkiyIlo9VJM0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/toKjGfkiyIlo9VJM
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid toKjGfkiyIlo9VJMLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- pancreas
- Modality
- RNA
- Observations (cells)
- 107,097
- Transcripts
- 18,609,971
- Tier
- bronze
- Size
- 1.4 GB
- Sample ID
- GSM9433817
- License
- NCBI GEO policy
- Published
- Mar 18, 2026
Cite this dataset
doi.org/10.1016/j.cell.2026.03.032 ↗ BibTeX
@article{geo:GSM9433817,
doi = {10.1016/j.cell.2026.03.032},
title = {GSM9433817},
year = {2026}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB