10x Xenium
Mouse lung
GSM9830050
bronze Interactive viewer tuberculosis Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 30685, 48306), (1, 15342, 24153), (1, 7671, 12076), (1, 3835, 6038), (1, 1917, 3019)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (30657, 47499), (15328, 23749), (7664, 11874), (3832, 5937), (1916, 2968)
│ └── 'nucleus_labels': DataTree[yx] (30584, 47453), (15292, 23726), (7646, 11863), (3823, 5931), (1911, 2965)
├── Points
│ └── 'transcripts': DataFrame with shape: (121783153, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (302232, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (302232, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (303992, 2) (2D shapes)
└── Tables
└── 'table': AnnData (302232, 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) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("PB5eyXf1GBRJFhK60000")
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("PB5eyXf1GBRJFhK6") # 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 PB5eyXf1GBRJFhK60000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/PB5eyXf1GBRJFhK6
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid PB5eyXf1GBRJFhK6License: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- lung
- Condition
- tuberculosis
- Modality
- RNA
- Observations (cells)
- 302,232
- Transcripts
- 121,783,153
- Tier
- bronze
- Size
- 4.6 GB
- Sample ID
- GSM9830050
- License
- NCBI GEO policy
- Published
- Jun 26, 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