10x Xenium
Mouse liver
GSM8945653
bronze Interactive viewer Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_focus': DataTree[cyx] (4, 3525, 8625), (4, 1762, 4312), (4, 881, 2156), (4, 440, 1078), (4, 220, 539)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (3525, 8625), (1762, 4312), (881, 2156), (440, 1078), (220, 539)
│ └── 'nucleus_labels': DataTree[yx] (3525, 8625), (1762, 4312), (881, 2156), (440, 1078), (220, 539)
├── Points
│ └── 'transcripts': DataFrame with shape: (1801580, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (5285, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (5285, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (5405, 2) (2D shapes)
└── Tables
└── 'table': AnnData (5285, 5050)
with coordinate systems:
▸ 'global', with elements:
morphology_focus (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("Ee1qQj17f5M2vMme") # 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/Ee1qQj17f5M2vMme
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid Ee1qQj17f5M2vMme Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["Ee1qQj17f5M2vMme0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openPart of collection
High resolution mapping of erythroid niches in mice using subcellular spatial transcriptomics→ 6 datasets · publication
Metadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- liver
- Modality
- RNA
- Observations
- 5,285
- Transcripts
- 1,801,580
- Tier
- bronze
- Size
- 159 MB
- Sample ID
- GSM8945653
- License
- NCBI GEO policy
- Published
- May 18, 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