10x Xenium
Human skin of body
GSM9079626
silver Interactive viewer acne No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 13810, 11519), (1, 6905, 5759), (1, 3452, 2879), (1, 1726, 1439), (1, 863, 719)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (13493, 10352), (6746, 5176), (3373, 2588), (1686, 1294), (843, 647)
│ └── 'nucleus_labels': DataTree[yx] (13246, 10306), (6623, 5153), (3311, 2576), (1655, 1288), (827, 644)
├── Points
│ └── 'transcripts': DataFrame with shape: (641709, 11) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (10314, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (10314, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (10186, 2) (2D shapes)
└── Tables
└── 'table': AnnData (10314, 100)
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("H6ATHoqBYPMztWmH") # 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/H6ATHoqBYPMztWmH
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid H6ATHoqBYPMztWmH Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["H6ATHoqBYPMztWmH0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openMetadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- skin of body
- Condition
- acne
- Modality
- RNA
- Observations
- 10,314
- Transcripts
- 641,709
- Tier
- silver
- Size
- 179 MB
- Sample ID
- GSM9079626
- License
- unknown
- Published
- Dec 3, 2025
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB