10x Xenium
Mouse skin of body
GSM9636011
bronze Interactive viewer Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 10336, 39758), (1, 5168, 19879), (1, 2584, 9939), (1, 1292, 4969), (1, 646, 2484)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (9981, 38443), (4990, 19221), (2495, 9610), (1247, 4805), (623, 2402)
│ └── 'nucleus_labels': DataTree[yx] (9943, 38394), (4971, 19197), (2485, 9598), (1242, 4799), (621, 2399)
├── Points
│ └── 'transcripts': DataFrame with shape: (11883443, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (23784, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (23784, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (23697, 2) (2D shapes)
└── Tables
└── 'table': AnnData (23784, 5106)
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) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("bwx4ixrrHxLarxnM") # 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/bwx4ixrrHxLarxnM
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid bwx4ixrrHxLarxnM Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["bwx4ixrrHxLarxnM0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- skin of body
- Modality
- RNA
- Observations
- 23,784
- Transcripts
- 11,883,443
- Tier
- bronze
- Size
- 739 MB
- Sample ID
- GSM9636011
- License
- unknown
- Published
- Jun 25, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB