10x Xenium
Human bone marrow
GSM9824313
silver Interactive viewer clonal hematopoiesis of indeterminate potential No linked publication
print(sdata)
SpatialData object
├── Labels
│ ├── 'cell_labels': DataTree[yx] (30325, 33757), (15162, 16878), (7581, 8439), (3790, 4219), (1895, 2109)
│ └── 'nucleus_labels': DataTree[yx] (30216, 32202), (15108, 16101), (7554, 8050), (3777, 4025), (1888, 2012)
├── Points
│ └── 'transcripts': DataFrame with shape: (3560878, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (40264, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (40264, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (42213, 2) (2D shapes)
└── Tables
└── 'table': AnnData (40264, 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("Gu7VesKw7QhVwVmJ") # 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/Gu7VesKw7QhVwVmJ
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid Gu7VesKw7QhVwVmJ Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["Gu7VesKw7QhVwVmJ0000"])[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
- 40,264
- Transcripts
- 3,560,878
- Tier
- silver
- Size
- 124 MB
- Sample ID
- GSM9824313
- 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