10x Xenium
Human lung
GSM9525786
bronze Interactive viewer Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 17189, 20059), (1, 8594, 10029), (1, 4297, 5014), (1, 2148, 2507), (1, 1074, 1253)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (17150, 19952), (8575, 9976), (4287, 4988), (2143, 2494), (1071, 1247)
│ └── 'nucleus_labels': DataTree[yx] (17138, 19925), (8569, 9962), (4284, 4981), (2142, 2490), (1071, 1245)
├── Points
│ └── 'transcripts': DataFrame with shape: (2865161, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (14187, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (14187, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (14134, 2) (2D shapes)
└── Tables
└── 'table': AnnData (14187, 480)
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("NysLnBkdG2EdzdRh0000")
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("NysLnBkdG2EdzdRh") # 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 NysLnBkdG2EdzdRh0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/NysLnBkdG2EdzdRh
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid NysLnBkdG2EdzdRhLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- lung
- Modality
- RNA
- Observations (cells)
- 14,187
- Transcripts
- 2,865,161
- Tier
- bronze
- Size
- 478 MB
- Sample ID
- GSM9525786
- License
- NCBI GEO policy
- Published
- Jun 8, 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