10x Xenium
Human bone marrow
GSM9824312
silver Interactive viewer clonal hematopoiesis of indeterminate potential No linked publication
print(sdata)
SpatialData object
├── Labels
│ ├── 'cell_labels': DataTree[yx] (32832, 45339), (16416, 22669), (8208, 11334), (4104, 5667), (2052, 2833)
│ └── 'nucleus_labels': DataTree[yx] (32599, 45276), (16299, 22638), (8149, 11319), (4074, 5659), (2037, 2829)
├── Points
│ └── 'transcripts': DataFrame with shape: (7730431, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (61583, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (61583, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (63059, 2) (2D shapes)
└── Tables
└── 'table': AnnData (61583, 5101)
with coordinate systems:
▸ 'global', with elements:
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("GgFGRPMyYqtYCVak") # 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/GgFGRPMyYqtYCVak
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid GgFGRPMyYqtYCVak Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["GgFGRPMyYqtYCVak0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- bone marrow
- Condition
- clonal hematopoiesis of indeterminate potential
- Modality
- RNA
- Observations
- 61,583
- Transcripts
- 7,730,431
- Tier
- silver
- Size
- 235 MB
- Sample ID
- GSM9824312
- License
- unknown
- Published
- Aug 13, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB