10x Xenium
Human ascending aorta
GSM9485374
bronze Interactive viewer aortic valve stenosis Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 27127, 51497), (1, 13563, 25748), (1, 6781, 12874), (1, 3390, 6437), (1, 1695, 3218)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (25289, 47641), (12644, 23820), (6322, 11910), (3161, 5955), (1580, 2977)
│ └── 'nucleus_labels': DataTree[yx] (25244, 47595), (12622, 23797), (6311, 11898), (3155, 5949), (1577, 2974)
├── Points
│ └── 'transcripts': DataFrame with shape: (2181257, 11) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (28664, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (28664, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (28664, 2) (2D shapes)
└── Tables
└── 'table': AnnData (28664, 377)
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("By5t5Q86dGTUh3Z60000")
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("By5t5Q86dGTUh3Z6") # 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 By5t5Q86dGTUh3Z60000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/By5t5Q86dGTUh3Z6
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid By5t5Q86dGTUh3Z6License: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- ascending aorta
- Condition
- aortic valve stenosis
- Modality
- RNA
- Observations (cells)
- 28,664
- Transcripts
- 2,181,257
- Tier
- bronze
- Size
- 1.1 GB
- Sample ID
- GSM9485374
- License
- NCBI GEO policy
- Published
- Feb 5, 2026
Cite this dataset
doi.org/10.1172/jci.insight.200255 ↗ BibTeX
@article{geo:GSM9485374,
doi = {10.1172/jci.insight.200255},
title = {GSM9485374},
year = {2026}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB