10x Xenium
Mouse submandibular gland
GSM9401277
bronze Interactive viewer Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 40933, 39760), (1, 20466, 19880), (1, 10233, 9940), (1, 5116, 4970), (1, 2558, 2485)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (40630, 39613), (20315, 19806), (10157, 9903), (5078, 4951), (2539, 2475)
│ └── 'nucleus_labels': DataTree[yx] (40272, 36225), (20136, 18112), (10068, 9056), (5034, 4528), (2517, 2264)
├── Points
│ └── 'transcripts': DataFrame with shape: (196128739, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (390706, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (390706, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (388028, 2) (2D shapes)
└── Tables
└── 'table': AnnData (390706, 5006)
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("0y1jktMmuIvBo2mR0000")
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("0y1jktMmuIvBo2mR") # 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 0y1jktMmuIvBo2mR0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/0y1jktMmuIvBo2mR
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 0y1jktMmuIvBo2mRLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- submandibular gland
- Modality
- RNA
- Observations (cells)
- 390,706
- Transcripts
- 196,128,739
- Tier
- bronze
- Size
- 6.2 GB
- Sample ID
- GSM9401277
- License
- NCBI GEO policy
- Published
- Aug 23, 2026
Cite this dataset
doi.org/10.1016/j.isci.2026.117494 ↗ BibTeX
@article{geo:GSM9401277,
doi = {10.1016/j.isci.2026.117494},
title = {GSM9401277},
year = {2026}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB