10x Xenium
Human coronary artery
GSM9423581
bronze Interactive viewer atherosclerosis Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 23900, 17141), (1, 11950, 8570), (1, 5975, 4285), (1, 2987, 2142), (1, 1493, 1071)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (22949, 16804), (11474, 8402), (5737, 4201), (2868, 2100), (1434, 1050)
│ └── 'nucleus_labels': DataTree[yx] (20993, 16263), (10496, 8131), (5248, 4065), (2624, 2032), (1312, 1016)
├── Points
│ └── 'transcripts': DataFrame with shape: (885460, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (5878, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (5878, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (5693, 2) (2D shapes)
└── Tables
└── 'table': AnnData (5878, 477)
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) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("yGNWZrjHyYvIrxtJ") # 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 Load from the CLI
# one-shot: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/yGNWZrjHyYvIrxtJ
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid yGNWZrjHyYvIrxtJ Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["yGNWZrjHyYvIrxtJ0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- coronary artery
- Condition
- atherosclerosis
- Modality
- RNA
- Observations
- 5,878
- Transcripts
- 885,460
- Tier
- bronze
- Size
- 303 MB
- Sample ID
- GSM9423581
- License
- unknown
- Published
- Feb 2, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB