10x Xenium
Mouse lung
GSM9830047
bronze Interactive viewer tuberculosis Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 34105, 51148), (1, 17052, 25574), (1, 8526, 12787), (1, 4263, 6393), (1, 2131, 3196)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (33441, 51026), (16720, 25513), (8360, 12756), (4180, 6378), (2090, 3189)
│ └── 'nucleus_labels': DataTree[yx] (33394, 50982), (16697, 25491), (8348, 12745), (4174, 6372), (2087, 3186)
├── Points
│ └── 'transcripts': DataFrame with shape: (168963958, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (398650, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (398650, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (401561, 2) (2D shapes)
└── Tables
└── 'table': AnnData (398650, 429)
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("U4Zzau8tXd49KAMN") # 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/U4Zzau8tXd49KAMN
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid U4Zzau8tXd49KAMN Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["U4Zzau8tXd49KAMN0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- lung
- Condition
- tuberculosis
- Modality
- RNA
- Observations
- 398,650
- Transcripts
- 168,963,958
- Tier
- bronze
- Size
- 5.6 GB
- Sample ID
- GSM9830047
- License
- unknown
- Published
- Jun 26, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB