Visium
Mouse kidney
GSM9580201
bronze Interactive viewer H&E diabetic kidney disease Provisional
print(sdata)
SpatialData object
├── Images
│ ├── 'GSM9580201_B1_hires_image': DataArray[cyx] (3, 1994, 2000)
│ └── 'GSM9580201_B1_lowres_image': DataArray[cyx] (3, 598, 600)
├── Shapes
│ └── 'GSM9580201_B1': GeoDataFrame shape: (1058, 2) (2D shapes)
└── Tables
└── 'table': AnnData (1058, 32285)
with coordinate systems:
▸ 'GSM9580201_B1', with elements:
GSM9580201_B1_hires_image (Images), GSM9580201_B1_lowres_image (Images), GSM9580201_B1 (Shapes)
▸ 'GSM9580201_B1_downscaled_hires', with elements:
GSM9580201_B1_hires_image (Images), GSM9580201_B1 (Shapes)
▸ 'GSM9580201_B1_downscaled_lowres', with elements:
GSM9580201_B1_lowres_image (Images), GSM9580201_B1 (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("VTH4sWHFN0KuPjrV0000")
ds.elements() # inspect without downloading
sdata = ds.to_sdata() # cached locally, reused
print(sdata) Python · lamindb
Needs pip install lamindb and network access to the Lamin database, which is limited during the alpha. If it fails, use the Client tab.
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("VTH4sWHFN0KuPjrV") # stem uid: Lamin resolves it to the 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 Shell
# sddb client: download the .zarr into data/
sddb-cli download VTH4sWHFN0KuPjrV0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/VTH4sWHFN0KuPjrV
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid VTH4sWHFN0KuPjrVLicense: NCBI GEO policy
Part of collection
TREM2⁺ macrophages from distinct origins mediate compartment-specific protection in diabetic kidney disease [Spatial Transcriptomics]→ 4 datasets · comparison
Metadata
- Technology
- Visium
- Organism
- mouse
- Tissue
- kidney
- Condition
- diabetic kidney disease
- Modality
- RNA
- Observations (spots)
- 1,058
- Tier
- bronze
- Chemistry
- Visium v1
- Resolution
- 2,000 × 1,994 px
- mpp
- 3.594 µm/px
- Size
- 18.3 MB
- Sample ID
- GSM9580201
- License
- NCBI GEO policy
- Published
- Oct 9, 2026
Cite this dataset
doi.org/10.1681/ASN.0000001248 ↗ BibTeX
@article{geo:GSM9580201,
doi = {10.1681/ASN.0000001248},
title = {GSM9580201},
year = {2026}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB