10x Xenium
Mouse submandibular gland
GSM9401284
bronze Interactive viewer Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 34118, 42696), (1, 17059, 21348), (1, 8529, 10674), (1, 4264, 5337), (1, 2132, 2668)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (33920, 42660), (16960, 21330), (8480, 10665), (4240, 5332), (2120, 2666)
│ └── 'nucleus_labels': DataTree[yx] (33789, 42456), (16894, 21228), (8447, 10614), (4223, 5307), (2111, 2653)
├── Points
│ └── 'transcripts': DataFrame with shape: (176429446, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (362563, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (362563, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (361913, 2) (2D shapes)
└── Tables
└── 'table': AnnData (362563, 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("PpMyhvZoIJ9RHjfX0000")
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("PpMyhvZoIJ9RHjfX") # 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 PpMyhvZoIJ9RHjfX0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/PpMyhvZoIJ9RHjfX
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid PpMyhvZoIJ9RHjfXLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- submandibular gland
- Modality
- RNA
- Observations (cells)
- 362,563
- Transcripts
- 176,429,446
- Tier
- bronze
- Size
- 5.9 GB
- Sample ID
- GSM9401284
- License
- NCBI GEO policy
- Published
- Aug 23, 2026
Cite this dataset
doi.org/10.1016/j.isci.2026.117494 ↗ BibTeX
@article{geo:GSM9401284,
doi = {10.1016/j.isci.2026.117494},
title = {GSM9401284},
year = {2026}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB