10x Xenium
Mouse bone element
GSM9703600
silver Interactive viewer melanoma No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 23752, 42726), (1, 11876, 21363), (1, 5938, 10681), (1, 2969, 5340), (1, 1484, 2670)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (20056, 42539), (10028, 21269), (5014, 10634), (2507, 5317), (1253, 2658)
│ └── 'nucleus_labels': DataTree[yx] (20027, 42524), (10013, 21262), (5006, 10631), (2503, 5315), (1251, 2657)
├── Points
│ └── 'transcripts': DataFrame with shape: (4881932, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (65456, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (65456, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (66066, 2) (2D shapes)
└── Tables
└── 'table': AnnData (65456, 5046)
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("z0JfuvQOw9OyACQN") # 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/z0JfuvQOw9OyACQN
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid z0JfuvQOw9OyACQN Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["z0JfuvQOw9OyACQN0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openPart of collection
Spatial transcriptomics of bone taken from two PRF1-/- B16F10-injected and one PRF1-/- healthy control- bone tissues using Xenium→ 6 datasets · comparison
Metadata
- Technology
- 10x Xenium
- Organism
- mouse
- Tissue
- bone element
- Condition
- melanoma
- Modality
- RNA
- Observations
- 65,456
- Transcripts
- 4,881,932
- Tier
- silver
- Size
- 813 MB
- Sample ID
- GSM9703600
- License
- unknown
- Published
- Jul 28, 2026
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB