10x Xenium
Human bone marrow
GSM9824314
silver Interactive viewer No linked publication
print(sdata)
SpatialData object
├── Labels
│ ├── 'cell_labels': DataTree[yx] (30486, 29768), (15243, 14884), (7621, 7442), (3810, 3721), (1905, 1860)
│ └── 'nucleus_labels': DataTree[yx] (30442, 29722), (15221, 14861), (7610, 7430), (3805, 3715), (1902, 1857)
├── Points
│ └── 'transcripts': DataFrame with shape: (2442485, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (23992, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (23992, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (24407, 2) (2D shapes)
└── Tables
└── 'table': AnnData (23992, 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("F8E89BjjMCaziVh60000")
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("F8E89BjjMCaziVh6") # 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 F8E89BjjMCaziVh60000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/F8E89BjjMCaziVh6
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid F8E89BjjMCaziVh6License: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- bone marrow
- Modality
- RNA
- Observations (cells)
- 23,992
- Transcripts
- 2,442,485
- Tier
- silver
- Size
- 86.1 MB
- Sample ID
- GSM9824314
- 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