10x Xenium
Human skin of body
GSM9902814
silver Interactive viewer keloid No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 98567, 42658), (1, 49283, 21329), (1, 24641, 10664), (1, 12320, 5332), (1, 6160, 2666)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (98109, 42350), (49054, 21175), (24527, 10587), (12263, 5293), (6131, 2646)
│ └── 'nucleus_labels': DataTree[yx] (98070, 42322), (49035, 21161), (24517, 10580), (12258, 5290), (6129, 2645)
├── Points
│ └── 'transcripts': DataFrame with shape: (29291619, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (86647, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (86647, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (85935, 2) (2D shapes)
└── Tables
└── 'table': AnnData (86647, 360)
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("pBLPikFm2hQ3Qgde") # 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/pBLPikFm2hQ3Qgde
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid pBLPikFm2hQ3Qgde Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["pBLPikFm2hQ3Qgde0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openPart of collection
Xenium spatial transcriptomics identifies mesenchymal fibroblast expansion and conserved fibrotic ECM programs in keloid→ 2 datasets · comparison
Metadata
- Technology
- 10x Xenium
- Organism
- human
- Tissue
- skin of body
- Condition
- keloid
- Modality
- RNA
- Observations
- 86,647
- Transcripts
- 29,291,619
- Tier
- silver
- Size
- 2.5 GB
- Sample ID
- GSM9902814
- License
- unknown
- Published
- Jul 24, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB