10x Xenium
Human ovary
GSM9535607
bronze Interactive viewer ovarian serous adenocarcinoma Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 23904, 22839), (1, 11952, 11419), (1, 5976, 5709), (1, 2988, 2854), (1, 1494, 1427)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (23423, 20336), (11711, 10168), (5855, 5084), (2927, 2542), (1463, 1271)
│ └── 'nucleus_labels': DataTree[yx] (22784, 20285), (11392, 10142), (5696, 5071), (2848, 2535), (1424, 1267)
├── Points
│ └── 'transcripts': DataFrame with shape: (7819049, 11) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (110570, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (110570, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (113034, 2) (2D shapes)
└── Tables
└── 'table': AnnData (110570, 380)
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("Ex8cQhFw9SbcVV7M0000")
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("Ex8cQhFw9SbcVV7M") # 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 Ex8cQhFw9SbcVV7M0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/Ex8cQhFw9SbcVV7M
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid Ex8cQhFw9SbcVV7MLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- ovary
- Condition
- ovarian serous adenocarcinoma
- Modality
- RNA
- Observations (cells)
- 110,570
- Transcripts
- 7,819,049
- Tier
- bronze
- Size
- 848 MB
- Sample ID
- GSM9535607
- License
- NCBI GEO policy
- Published
- Feb 26, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB