10x Xenium
Human lung
GSM9535605
bronze Interactive viewer non-small cell lung carcinoma Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 40965, 37113), (1, 20482, 18556), (1, 10241, 9278), (1, 5120, 4639), (1, 2560, 2319)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (40861, 36686), (20430, 18343), (10215, 9171), (5107, 4585), (2553, 2292)
│ └── 'nucleus_labels': DataTree[yx] (40315, 36531), (20157, 18265), (10078, 9132), (5039, 4566), (2519, 2283)
├── Points
│ └── 'transcripts': DataFrame with shape: (83606709, 11) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (545933, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (545933, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (551710, 2) (2D shapes)
└── Tables
└── 'table': AnnData (545933, 380)
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("LEXgum7sViFNHr2s") # 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/LEXgum7sViFNHr2s
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid LEXgum7sViFNHr2s Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["LEXgum7sViFNHr2s0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- lung
- Condition
- non-small cell lung carcinoma
- Modality
- RNA
- Observations
- 545,933
- Transcripts
- 83,606,709
- Tier
- bronze
- Size
- 5.6 GB
- Sample ID
- GSM9535605
- License
- unknown
- Published
- Feb 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