10x Xenium
Mouse bone element
GSM9703601
silver Interactive viewer melanoma No linked publication
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 47503, 48439), (1, 23751, 24219), (1, 11875, 12109), (1, 5937, 6054), (1, 2968, 3027)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (46319, 47430), (23159, 23715), (11579, 11857), (5789, 5928), (2894, 2964)
│ └── 'nucleus_labels': DataTree[yx] (46278, 47409), (23139, 23704), (11569, 11852), (5784, 5926), (2892, 2963)
├── Points
│ └── 'transcripts': DataFrame with shape: (33680413, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (140716, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (140716, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (140890, 2) (2D shapes)
└── Tables
└── 'table': AnnData (140716, 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("amHAPeNRKjcTIcRN") # 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/amHAPeNRKjcTIcRN
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid amHAPeNRKjcTIcRN Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["amHAPeNRKjcTIcRN0000"])[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
- 140,716
- Transcripts
- 33,680,413
- Tier
- silver
- Size
- 2.6 GB
- Sample ID
- GSM9703601
- 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