Visium

Mouse brain

GSM9367549

bronze Interactive viewer H&E traumatic brain injury Provisional

Preview Client Lamin CLI

print(sdata)

SpatialData object
├── Images
│     ├── 'GSM9367549_L0-37649_2_hires_image': DataArray[cyx] (3, 1889, 2000)
│     └── 'GSM9367549_L0-37649_2_lowres_image': DataArray[cyx] (3, 567, 600)
├── Shapes
│     └── 'GSM9367549_L0-37649_2': GeoDataFrame shape: (2844, 2) (2D shapes)
└── Tables
      └── 'table': AnnData (2844, 32285)
with coordinate systems:
    ▸ 'GSM9367549_L0-37649_2', with elements:
        GSM9367549_L0-37649_2_hires_image (Images), GSM9367549_L0-37649_2_lowres_image (Images), GSM9367549_L0-37649_2 (Shapes)
    ▸ 'GSM9367549_L0-37649_2_downscaled_hires', with elements:
        GSM9367549_L0-37649_2_hires_image (Images), GSM9367549_L0-37649_2 (Shapes)
    ▸ 'GSM9367549_L0-37649_2_downscaled_lowres', with elements:
        GSM9367549_L0-37649_2_lowres_image (Images), GSM9367549_L0-37649_2 (Shapes)

Install (Python 3.12+) Docs →

Python · sddb client

from sddb import Catalog

ds = Catalog().dataset("wHTw2BoE5NmhLbHj0000")
ds.elements()          # inspect without downloading
sdata = ds.to_sdata()  # cached locally, reused
print(sdata)

Install (Python 3.12+) Docs →

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("wHTw2BoE5NmhLbHj")   # 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

Install (Python 3.12+) Docs →

Shell

# sddb client: download the .zarr into data/
sddb-cli download wHTw2BoE5NmhLbHj0000 --dest data/

# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/wHTw2BoE5NmhLbHj

# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid wHTw2BoE5NmhLbHj

Install (Python 3.12+) Docs →

License: NCBI GEO policy

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Part of collection

Adult Mouse Controlled Cortical Impact Visium Spatial Transcriptomics→

34 datasets · time course

Metadata

Technology: Visium
Organism: mouse
Tissue: brain
Condition: traumatic brain injury
Modality: RNA
Observations (spots): 2,844
Tier: bronze
Chemistry: Visium v1
Resolution: 2,000 × 1,889 px
mpp: 3.636 µm/px
Size: 54.6 MB
Sample ID: GSM9367549
License: NCBI GEO policy
Published: Dec 17, 2025

Cite this dataset

doi.org/10.1177/08977151251390528 ↗

BibTeX

@article{geo:GSM9367549,
  doi = {10.1177/08977151251390528},
  title = {GSM9367549},
  year = {2026}
}

Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB