Visium
Mouse ovary
GSM8450580
bronze Interactive viewer H&E ovarian cancer Provisional
print(sdata)
SpatialData object
├── Images
│ ├── 'GSM8450580_OV_FC_ACT_hires_image': DataArray[cyx] (3, 1974, 2000)
│ └── 'GSM8450580_OV_FC_ACT_lowres_image': DataArray[cyx] (3, 592, 600)
├── Shapes
│ └── 'GSM8450580_OV_FC_ACT': GeoDataFrame shape: (1676, 2) (2D shapes)
└── Tables
└── 'table': AnnData (1676, 19465)
with coordinate systems:
▸ 'GSM8450580_OV_FC_ACT', with elements:
GSM8450580_OV_FC_ACT_hires_image (Images), GSM8450580_OV_FC_ACT_lowres_image (Images), GSM8450580_OV_FC_ACT (Shapes)
▸ 'GSM8450580_OV_FC_ACT_downscaled_hires', with elements:
GSM8450580_OV_FC_ACT_hires_image (Images), GSM8450580_OV_FC_ACT (Shapes)
▸ 'GSM8450580_OV_FC_ACT_downscaled_lowres', with elements:
GSM8450580_OV_FC_ACT_lowres_image (Images), GSM8450580_OV_FC_ACT (Shapes) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("C56VXrjloANoiP71") # 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/C56VXrjloANoiP71
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid C56VXrjloANoiP71 Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["C56VXrjloANoiP710000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openPart of collection
Consequences of the perivascular niche remodeling for tumoricidal T-cell trafficking into metastasis of ovarian cancer [Spatial Transciptomics]→ 4 datasets · comparison
Metadata
- Technology
- Visium
- Organism
- mouse
- Tissue
- ovary
- Condition
- ovarian cancer
- Modality
- RNA
- Observations
- 1,676
- Tier
- bronze
- Chemistry
- Visium v1
- Magnification
- other
- Resolution
- 2,000 × 1,974 px
- mpp
- 3.323 µm/px
- Size
- 36 MB
- Sample ID
- GSM8450580
- License
- unknown
- Published
- Oct 15, 2024
Cite this dataset
No linked publication found — please cite the data source: NCBI GEO ↗.
Source: NCBI GEO ↗ · Reprocessed to SpatialData by SpatialData-DB