Visium
Rat brain
GSM9078939
bronze H&E temporal lobe epilepsy Provisional
print(sdata)
SpatialData object
├── Images
│ ├── 'GSM9078939_C_L2_S7_hires_image': DataArray[cyx] (3, 2000, 1979)
│ └── 'GSM9078939_C_L2_S7_lowres_image': DataArray[cyx] (3, 600, 594)
├── Shapes
│ └── 'GSM9078939_C_L2_S7': GeoDataFrame shape: (2907, 2) (2D shapes)
└── Tables
└── 'table': AnnData (2907, 35236)
with coordinate systems:
▸ 'GSM9078939_C_L2_S7', with elements:
GSM9078939_C_L2_S7_hires_image (Images), GSM9078939_C_L2_S7_lowres_image (Images), GSM9078939_C_L2_S7 (Shapes)
▸ 'GSM9078939_C_L2_S7_downscaled_hires', with elements:
GSM9078939_C_L2_S7_hires_image (Images), GSM9078939_C_L2_S7 (Shapes)
▸ 'GSM9078939_C_L2_S7_downscaled_lowres', with elements:
GSM9078939_C_L2_S7_lowres_image (Images), GSM9078939_C_L2_S7 (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("c65GeySNyMKdgDgZ0000")
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("c65GeySNyMKdgDgZ") # 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 c65GeySNyMKdgDgZ0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/c65GeySNyMKdgDgZ
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid c65GeySNyMKdgDgZLicense: NCBI GEO policy
Part of collection
Spatiotemporal transcriptomic mapping reveals region-specific glial activation and astrocyte subtype shifts in epileptogenesis beyond the hippocampus→ 16 datasets · time course
Metadata
- Technology
- Visium
- Organism
- rat
- Tissue
- brain
- Condition
- temporal lobe epilepsy
- Modality
- RNA
- Observations (spots)
- 2,907
- Tier
- bronze
- Chemistry
- Visium v1
- Resolution
- 1,979 × 2,000 px
- mpp
- 3.281 µm/px
- Size
- 49.4 MB
- Sample ID
- GSM9078939
- License
- NCBI GEO policy
- Published
- Feb 18, 2026
Cite this dataset
doi.org/10.1186/s40478-026-02224-y ↗ BibTeX
@article{Dufour_2026,
title = {Spatiotemporal transcriptomic mapping reveals region-specific glial activation and astrocyte shifts in epileptogenesis beyond the hippocampus},
volume = {14},
ISSN = {2051-5960},
url = {http://dx.doi.org/10.1186/s40478-026-02224-y},
DOI = {10.1186/s40478-026-02224-y},
number = {1},
journal = {Acta Neuropathologica Communications},
publisher = {Springer Science and Business Media LLC},
author = {Dufour, Adrien and Le Priol, Christophe and Porte, Baptiste and Jouanard, Ronan and Maurizio, Julien and Receveur, Anne-Elodie and Auvin, Stéphane and Van Steenwinckel, Juliette and Gressens, Pierre and Delahaye-Duriez, Andrée},
year = {2026},
month = Jan
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB