10x Xenium
Human lung
GSM9509154
bronze Interactive viewer non-small cell lung carcinoma Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_focus': DataTree[cyx] (1, 17085, 31276), (1, 8542, 15638), (1, 4271, 7819), (1, 2135, 3909), (1, 1067, 1954)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (16993, 28613), (8496, 14306), (4248, 7153), (2124, 3576), (1062, 1788)
│ └── 'nucleus_labels': DataTree[yx] (16881, 28473), (8440, 14236), (4220, 7118), (2110, 3559), (1055, 1779)
├── Points
│ └── 'transcripts': DataFrame with shape: (1225472, 10) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (16969, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (16969, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (16969, 1) (2D shapes)
└── Tables
└── 'table': AnnData (16969, 289)
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) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("MpyLyXK2X8rlf7uL0000")
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("MpyLyXK2X8rlf7uL") # 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 MpyLyXK2X8rlf7uL0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/MpyLyXK2X8rlf7uL
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid MpyLyXK2X8rlf7uLLicense: NCBI GEO policy
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- lung
- Condition
- non-small cell lung carcinoma
- Modality
- RNA
- Observations (cells)
- 16,969
- Transcripts
- 1,225,472
- Tier
- bronze
- Size
- 485 MB
- Sample ID
- GSM9509154
- License
- NCBI GEO policy
- Published
- Mar 27, 2026
Cite this dataset
doi.org/10.1038/s41592-026-03089-8 ↗ BibTeX
@article{geo:GSM9509154,
doi = {10.1038/s41592-026-03089-8},
title = {GSM9509154},
year = {2026}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB