10x Xenium
Human heart
GSM9526112
bronze Interactive viewer cardiac sarcoidosis Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 34094, 19988), (1, 17047, 9994), (1, 8523, 4997), (1, 4261, 2498), (1, 2130, 1249)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (33843, 19977), (16921, 9988), (8460, 4994), (4230, 2497), (2115, 1248)
│ └── 'nucleus_labels': DataTree[yx] (33797, 19931), (16898, 9965), (8449, 4982), (4224, 2491), (2112, 1245)
├── Points
│ └── 'transcripts': DataFrame with shape: (6476238, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (30913, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (30913, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (30913, 2) (2D shapes)
└── Tables
└── 'table': AnnData (30913, 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) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("IJ3xzRoqDRi8Rm7E0000")
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("IJ3xzRoqDRi8Rm7E") # 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 IJ3xzRoqDRi8Rm7E0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/IJ3xzRoqDRi8Rm7E
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid IJ3xzRoqDRi8Rm7ELicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- heart
- Condition
- cardiac sarcoidosis
- Modality
- RNA
- Observations (cells)
- 30,913
- Transcripts
- 6,476,238
- Tier
- bronze
- Size
- 1.0 GB
- Sample ID
- GSM9526112
- License
- NCBI GEO policy
- Published
- May 25, 2026
Cite this dataset
doi.org/10.1161/CIRCULATIONAHA.126.079304 ↗ BibTeX
@article{geo:GSM9526112,
doi = {10.1161/CIRCULATIONAHA.126.079304},
title = {GSM9526112},
year = {2026}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB