Visium
Human cortex of kidney
GSM9108684
bronze Interactive viewer H&E anti-neutrophil cytoplasmic antibody-associated vasculitis Provisional
print(sdata)
SpatialData object
├── Images
│ ├── 'GSM9108684_aav1_hires_image': DataArray[cyx] (3, 2000, 1976)
│ └── 'GSM9108684_aav1_lowres_image': DataArray[cyx] (3, 600, 593)
├── Shapes
│ └── 'GSM9108684_aav1': GeoDataFrame shape: (892, 2) (2D shapes)
└── Tables
└── 'table': AnnData (892, 36601)
with coordinate systems:
▸ 'GSM9108684_aav1', with elements:
GSM9108684_aav1_hires_image (Images), GSM9108684_aav1_lowres_image (Images), GSM9108684_aav1 (Shapes)
▸ 'GSM9108684_aav1_downscaled_hires', with elements:
GSM9108684_aav1_hires_image (Images), GSM9108684_aav1 (Shapes)
▸ 'GSM9108684_aav1_downscaled_lowres', with elements:
GSM9108684_aav1_lowres_image (Images), GSM9108684_aav1 (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("QDCPKrVyQXAwITWU0001")
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("QDCPKrVyQXAwITWU") # 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 QDCPKrVyQXAwITWU0001 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/QDCPKrVyQXAwITWU
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid QDCPKrVyQXAwITWULicense: NCBI GEO policy
Part of collection
Spatial transcriptomics reveals injury-responsive compartments and coordinated immune–fibrotic signaling in ANCA-associated renal vasculitis→ 3 datasets · comparison
Metadata
- Technology
- Visium
- Organism
- human
- Tissue
- cortex of kidney
- Condition
- anti-neutrophil cytoplasmic antibody-associated vasculitis
- Modality
- RNA
- Observations (spots)
- 892
- Tier
- bronze
- Chemistry
- Visium v1
- Magnification
- other
- Resolution
- 1,976 × 2,000 px
- mpp
- 3.420 µm/px
- Size
- 11.8 MB
- Sample ID
- GSM9108684
- License
- NCBI GEO policy
- Published
- Jul 31, 2026
Cite this dataset
doi.org/10.3389/fimmu.2026.1884100 ↗ BibTeX
@article{Tang_2026,
title = {Spatial transcriptomics reveals injury-responsive compartments and coordinated immune–fibrotic signaling in ANCA-associated renal vasculitis},
volume = {17},
ISSN = {1664-3224},
url = {http://dx.doi.org/10.3389/fimmu.2026.1884100},
DOI = {10.3389/fimmu.2026.1884100},
journal = {Frontiers in Immunology},
publisher = {Frontiers Media SA},
author = {Tang, Yucheng and Zhu, Chunhua and Chen, Shuang and Chen, Huimei and Qian, Hai and Zhang, Aihua and Petretto, Enrico},
year = {2026},
month = July
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB