10x Xenium
Human bone marrow
GSM9824316
silver Interactive viewer No linked publication
print(sdata)
SpatialData object
├── Labels
│ ├── 'cell_labels': DataTree[yx] (33694, 30382), (16847, 15191), (8423, 7595), (4211, 3797), (2105, 1898)
│ └── 'nucleus_labels': DataTree[yx] (33689, 29494), (16844, 14747), (8422, 7373), (4211, 3686), (2105, 1843)
├── Points
│ └── 'transcripts': DataFrame with shape: (2334750, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (35084, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (35084, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (35380, 2) (2D shapes)
└── Tables
└── 'table': AnnData (35084, 5101)
with coordinate systems:
▸ 'global', with elements:
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("mcO3w4yaQiuNH10O0000")
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("mcO3w4yaQiuNH10O") # 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 mcO3w4yaQiuNH10O0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/mcO3w4yaQiuNH10O
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid mcO3w4yaQiuNH10OLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- bone marrow
- Modality
- RNA
- Observations (cells)
- 35,084
- Transcripts
- 2,334,750
- Tier
- silver
- Size
- 96.4 MB
- Sample ID
- GSM9824316
- License
- NCBI GEO policy
- Published
- Aug 13, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB