Visium

Mouse entorhinal cortex

GSM10058093

silver Interactive viewer H&E No linked publication

Preview Client Lamin CLI

print(sdata)

SpatialData object
├── Images
│     └── 'GSM10058093_Young2_s1_hires_image': DataArray[cyx] (3, 1993, 2000)
├── Shapes
│     └── 'GSM10058093_Young2_s1': GeoDataFrame shape: (3363, 2) (2D shapes)
└── Tables
      └── 'table': AnnData (3363, 32285)
with coordinate systems:
    ▸ 'GSM10058093_Young2_s1', with elements:
        GSM10058093_Young2_s1_hires_image (Images), GSM10058093_Young2_s1 (Shapes)
    ▸ 'GSM10058093_Young2_s1_downscaled_hires', with elements:
        GSM10058093_Young2_s1_hires_image (Images), GSM10058093_Young2_s1 (Shapes)
    ▸ 'GSM10058093_Young2_s1_downscaled_lowres', with elements:
        GSM10058093_Young2_s1 (Shapes)

Install (Python 3.12+) Docs →

Python · sddb client

from sddb import Catalog

ds = Catalog().dataset("sHzge500NTrakpP30000")
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("sHzge500NTrakpP3")   # 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 sHzge500NTrakpP30000 --dest data/

# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/sHzge500NTrakpP3

# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid sHzge500NTrakpP3

Install (Python 3.12+) Docs →

License: NCBI GEO policy

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Part of collection

14 datasets · other

Metadata

Technology: Visium
Organism: mouse
Tissue: entorhinal cortex
Modality: RNA
Observations (spots): 3,363
Tier: silver
Chemistry: Visium v1
Resolution: 2,000 × 1,993 px
mpp: 3.421 µm/px
Size: 70.6 MB
Sample ID: GSM10058093
License: NCBI GEO policy
Published: Sep 17, 2026

Cite this dataset

No linked publication found — please cite the data source: NCBI GEO ↗.

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