Visium
Human lung
GSM9485174
bronze Interactive viewer H&E Provisional
print(sdata)
SpatialData object
├── Images
│ ├── 'GSM9485174_control3_hires_image': DataArray[cyx] (3, 1992, 2000)
│ └── 'GSM9485174_control3_lowres_image': DataArray[cyx] (3, 598, 600)
├── Shapes
│ └── 'GSM9485174_control3': GeoDataFrame shape: (3604, 2) (2D shapes)
└── Tables
└── 'table': AnnData (3604, 36601)
with coordinate systems:
▸ 'GSM9485174_control3', with elements:
GSM9485174_control3_hires_image (Images), GSM9485174_control3_lowres_image (Images), GSM9485174_control3 (Shapes)
▸ 'GSM9485174_control3_downscaled_hires', with elements:
GSM9485174_control3_hires_image (Images), GSM9485174_control3 (Shapes)
▸ 'GSM9485174_control3_downscaled_lowres', with elements:
GSM9485174_control3_lowres_image (Images), GSM9485174_control3 (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("iR8WapddV0NG0Vvt0000")
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("iR8WapddV0NG0Vvt") # 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 iR8WapddV0NG0Vvt0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/iR8WapddV0NG0Vvt
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid iR8WapddV0NG0VvtLicense: NCBI GEO policy
Part of collection
Spatial Transcriptomics Reveals Compartment-Specific Cytotoxic T cells Crosstalk with AT2 and Goblet cells in Advanced COPD→ 8 datasets · comparison
Metadata
- Technology
- Visium
- Organism
- human
- Tissue
- lung
- Modality
- RNA
- Observations (spots)
- 3,604
- Tier
- bronze
- Chemistry
- Visium v1
- Resolution
- 2,000 × 1,992 px
- mpp
- 3.805 µm/px
- Size
- 13.3 MB
- Sample ID
- GSM9485174
- License
- NCBI GEO policy
- Published
- Sep 16, 2026
Cite this dataset
doi.org/10.1186/s40364-026-00960-w ↗ BibTeX
@article{Syarif_2026,
title = {Spatial transcriptomics reveals compartment-specific cytotoxic T cell crosstalk with AT2 and goblet cells in advanced COPD},
volume = {14},
ISSN = {2050-7771},
url = {http://dx.doi.org/10.1186/s40364-026-00960-w},
DOI = {10.1186/s40364-026-00960-w},
number = {1},
journal = {Biomarker Research},
publisher = {Springer Science and Business Media LLC},
author = {Syarif, Ayu Hutami and Reiter, Bernhard F. E. and Avian, Alexander and Milger, Katrin and Ellmeier, Elena and Hoefler, Gerald and Aigner, Clemens and Benazzo, Alberto and Auner, Sophia and Crnkovic, Slaven and Angiari, Stefano and Polverino, Francesca and Kwapiszewska, Grazyna and Marsh, Leigh M.},
year = {2026},
month = June
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB