10x Xenium
Human ovary
GSM9535606
bronze Interactive viewer ovarian serous adenocarcinoma Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 40762, 31496), (1, 20381, 15748), (1, 10190, 7874), (1, 5095, 3937), (1, 2547, 1968)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (38757, 31426), (19378, 15713), (9689, 7856), (4844, 3928), (2422, 1964)
│ └── 'nucleus_labels': DataTree[yx] (38295, 31014), (19147, 15507), (9573, 7753), (4786, 3876), (2393, 1938)
├── Points
│ └── 'transcripts': DataFrame with shape: (53859846, 11) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (355346, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (355346, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (362345, 2) (2D shapes)
└── Tables
└── 'table': AnnData (355346, 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("FVBEfvqtphqJQlVD0000")
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("FVBEfvqtphqJQlVD") # 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 FVBEfvqtphqJQlVD0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/FVBEfvqtphqJQlVD
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid FVBEfvqtphqJQlVDLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- ovary
- Condition
- ovarian serous adenocarcinoma
- Modality
- RNA
- Observations (cells)
- 355,346
- Transcripts
- 53,859,846
- Tier
- bronze
- Size
- 3.8 GB
- Sample ID
- GSM9535606
- 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