10x Xenium
Mouse pancreas
GSM9433805
bronze Interactive viewer Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 23901, 25652), (1, 11950, 12826), (1, 5975, 6413), (1, 2987, 3206), (1, 1493, 1603)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (20239, 24174), (10119, 12087), (5059, 6043), (2529, 3021), (1264, 1510)
│ └── 'nucleus_labels': DataTree[yx] (20099, 24036), (10049, 12018), (5024, 6009), (2512, 3004), (1256, 1502)
├── Points
│ └── 'transcripts': DataFrame with shape: (26052183, 10) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (132370, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (132370, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (132370, 1) (2D shapes)
└── Tables
└── 'table': AnnData (132370, 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("YNL5LAS3qVhMNqtW0000")
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("YNL5LAS3qVhMNqtW") # 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 YNL5LAS3qVhMNqtW0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/YNL5LAS3qVhMNqtW
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid YNL5LAS3qVhMNqtWLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- pancreas
- Modality
- RNA
- Observations (cells)
- 132,370
- Transcripts
- 26,052,183
- Tier
- bronze
- Size
- 1.9 GB
- Sample ID
- GSM9433805
- License
- NCBI GEO policy
- Published
- Mar 18, 2026
Cite this dataset
doi.org/10.1016/j.cell.2026.03.032 ↗ BibTeX
@article{geo:GSM9433805,
doi = {10.1016/j.cell.2026.03.032},
title = {GSM9433805},
year = {2026}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB