10x Xenium
Human skin of body
GSM9079623
silver Interactive viewer acne No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 17258, 20151), (1, 8629, 10075), (1, 4314, 5037), (1, 2157, 2518), (1, 1078, 1259)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (16700, 19905), (8350, 9952), (4175, 4976), (2087, 2488), (1043, 1244)
│ └── 'nucleus_labels': DataTree[yx] (16677, 19837), (8338, 9918), (4169, 4959), (2084, 2479), (1042, 1239)
├── Points
│ └── 'transcripts': DataFrame with shape: (2890084, 11) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (20595, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (20595, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (20557, 2) (2D shapes)
└── Tables
└── 'table': AnnData (20595, 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("bs7zBvjus9vKXO2t") # 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/bs7zBvjus9vKXO2t
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid bs7zBvjus9vKXO2t Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["bs7zBvjus9vKXO2t0000"])[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
- 20,595
- Transcripts
- 2,890,084
- Tier
- silver
- Size
- 444 MB
- Sample ID
- GSM9079623
- 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