10x Xenium

Human lung

GSM9052317

bronze Interactive viewer lung adenocarcinoma Provisional

Preview Client Lamin CLI

print(sdata)

SpatialData object
├── Labels
│     ├── 'cell_labels': DataTree[yx] (67527, 44983), (33763, 22491), (16881, 11245), (8440, 5622), (4220, 2811)
│     └── 'nucleus_labels': DataTree[yx] (67387, 44846), (33693, 22423), (16846, 11211), (8423, 5605), (4211, 2802)
├── Shapes
│     ├── 'cell_boundaries': GeoDataFrame shape: (136831, 1) (2D shapes)
│     ├── 'cell_circles': GeoDataFrame shape: (136831, 2) (2D shapes)
│     └── 'nucleus_boundaries': GeoDataFrame shape: (136831, 1) (2D shapes)
└── Tables
      └── 'table': AnnData (136831, 339)
with coordinate systems:
    ▸ 'global', with elements:
        cell_labels (Labels), nucleus_labels (Labels), cell_boundaries (Shapes), cell_circles (Shapes), nucleus_boundaries (Shapes)

Install (Python 3.12+) Docs →

Python · sddb client

from sddb import Catalog

ds = Catalog().dataset("Rpj9sLeXt9hg09Lr0000")
ds.elements()          # inspect without downloading
sdata = ds.to_sdata()  # cached locally, reused
print(sdata)

Install (Python 3.12+) Docs →

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("Rpj9sLeXt9hg09Lr")   # 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

Install (Python 3.12+) Docs →

Shell

# sddb client: download the .zarr into data/
sddb-cli download Rpj9sLeXt9hg09Lr0000 --dest data/

# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/Rpj9sLeXt9hg09Lr

# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid Rpj9sLeXt9hg09Lr

Install (Python 3.12+) Docs →

License: NCBI GEO policy

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Metadata

Technology: 10x Xenium
Organism: human
Tissue: lung
Condition: lung adenocarcinoma
Modality: RNA
Observations (cells): 136,831
Tier: bronze
Size: 164 MB
Sample ID: GSM9052317
License: NCBI GEO policy
Published: Jun 30, 2025

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