10x Xenium
Mouse small intestine
GSM9394258
bronze Interactive viewer Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_focus': DataTree[cyx] (4, 44283, 39783), (4, 22141, 19891), (4, 11070, 9945), (4, 5535, 4972), (4, 2767, 2486)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (44283, 39783), (22141, 19891), (11070, 9945), (5535, 4972), (2767, 2486)
│ └── 'nucleus_labels': DataTree[yx] (44283, 39783), (22141, 19891), (11070, 9945), (5535, 4972), (2767, 2486)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (384151, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (384151, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (372517, 2) (2D shapes)
└── Tables
└── 'table': AnnData (384151, 5006)
with coordinate systems:
▸ 'global', with elements:
morphology_focus (Images), cell_labels (Labels), nucleus_labels (Labels), 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("GU1UzXJqJQVDq5rX") # 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/GU1UzXJqJQVDq5rX
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid GU1UzXJqJQVDq5rX Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["GU1UzXJqJQVDq5rX0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openPart of collection
Eosinophils Orchestrate Intestinal Remodeling and Promote Innate Defense During Reproduction→ 8 datasets · comparison
Metadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- small intestine
- Modality
- RNA
- Observations
- 384,151
- Tier
- bronze
- Size
- 8.4 GB
- Sample ID
- GSM9394258
- License
- NCBI GEO policy
- Published
- Apr 30, 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