Visium
Mouse colon
GSM8694500
bronze Interactive viewer H&E colorectal cancer Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'GSM8694500_MC38_IgG_m08_hires_image': DataArray[cyx] (3, 2000, 2000)
├── Shapes
│ └── 'GSM8694500_MC38_IgG_m08': GeoDataFrame shape: (2435, 2) (2D shapes)
└── Tables
└── 'table': AnnData (2435, 20551)
with coordinate systems:
▸ 'GSM8694500_MC38_IgG_m08', with elements:
GSM8694500_MC38_IgG_m08_hires_image (Images), GSM8694500_MC38_IgG_m08 (Shapes)
▸ 'GSM8694500_MC38_IgG_m08_downscaled_hires', with elements:
GSM8694500_MC38_IgG_m08_hires_image (Images), GSM8694500_MC38_IgG_m08 (Shapes)
▸ 'GSM8694500_MC38_IgG_m08_downscaled_lowres', with elements:
GSM8694500_MC38_IgG_m08 (Shapes) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("lXx7tch8CqMMrSXl") # 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/lXx7tch8CqMMrSXl
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid lXx7tch8CqMMrSXl Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["lXx7tch8CqMMrSXl0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openPart of collection
Spatial genomics reveals cholesterol metabolism as a key factor in immunotherapy resistance in colorectal cancer [Visium]→ 22 datasets · comparison
Metadata
- Technology
- Visium
- Organism
- mouse
- Tissue
- colon
- Condition
- colorectal cancer
- Modality
- RNA
- Observations
- 2,435
- Tier
- bronze
- Chemistry
- Visium v1
- Resolution
- 2,000 × 2,000 px
- mpp
- 3.423 µm/px
- Size
- 49 MB
- Sample ID
- GSM8694500
- License
- unknown
- Published
- Mar 10, 2025
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB