10x Xenium
Mouse lumbar spinal cord
GSM9986813
silver Interactive viewer No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 54469, 11517), (1, 27234, 5758), (1, 13617, 2879), (1, 6808, 1439), (1, 3404, 719)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (54283, 11477), (27141, 5738), (13570, 2869), (6785, 1434), (3392, 717)
│ └── 'nucleus_labels': DataTree[yx] (52798, 11124), (26399, 5562), (13199, 2781), (6599, 1390), (3299, 695)
├── Points
│ └── 'transcripts': DataFrame with shape: (13130861, 11) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (24494, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (24494, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (24131, 2) (2D shapes)
└── Tables
└── 'table': AnnData (24494, 296)
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("j4pReifMVZueDAUR0000")
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("j4pReifMVZueDAUR") # 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 j4pReifMVZueDAUR0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/j4pReifMVZueDAUR
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid j4pReifMVZueDAURLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- lumbar spinal cord
- Modality
- RNA
- Observations (cells)
- 24,494
- Transcripts
- 13,130,861
- Tier
- silver
- Size
- 1.1 GB
- Sample ID
- GSM9986813
- License
- NCBI GEO policy
- Published
- Sep 28, 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