10x Xenium
Mouse submandibular gland
GSM9401282
bronze Interactive viewer Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 23928, 31341), (1, 11964, 15670), (1, 5982, 7835), (1, 2991, 3917), (1, 1495, 1958)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (23903, 30882), (11951, 15441), (5975, 7720), (2987, 3860), (1493, 1930)
│ └── 'nucleus_labels': DataTree[yx] (21960, 30844), (10980, 15422), (5490, 7711), (2745, 3855), (1372, 1927)
├── Points
│ └── 'transcripts': DataFrame with shape: (91820983, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (207599, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (207599, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (203818, 2) (2D shapes)
└── Tables
└── 'table': AnnData (207599, 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("JdJxR5PZGzH85Y2i0000")
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("JdJxR5PZGzH85Y2i") # 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 JdJxR5PZGzH85Y2i0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/JdJxR5PZGzH85Y2i
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid JdJxR5PZGzH85Y2iLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- submandibular gland
- Modality
- RNA
- Observations (cells)
- 207,599
- Transcripts
- 91,820,983
- Tier
- bronze
- Size
- 3.2 GB
- Sample ID
- GSM9401282
- License
- NCBI GEO policy
- Published
- Aug 23, 2026
Cite this dataset
doi.org/10.1016/j.isci.2026.117494 ↗ BibTeX
@article{geo:GSM9401282,
doi = {10.1016/j.isci.2026.117494},
title = {GSM9401282},
year = {2026}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB