Visium

Rat heart left ventricle

GSM8169580

silver Interactive viewer H&E myocardial infarction No linked publication

Preview Client Lamin CLI

print(sdata)

SpatialData object
├── Images
│     ├── 'GSM8169580_B2-JM_B2-JM_hires_image': DataArray[cyx] (3, 2000, 1948)
│     └── 'GSM8169580_B2-JM_B2-JM_lowres_image': DataArray[cyx] (3, 600, 585)
├── Shapes
│     └── 'GSM8169580_B2-JM_B2-JM': GeoDataFrame shape: (3735, 2) (2D shapes)
└── Tables
      └── 'table': AnnData (3735, 25399)
with coordinate systems:
    ▸ 'GSM8169580_B2-JM_B2-JM', with elements:
        GSM8169580_B2-JM_B2-JM_hires_image (Images), GSM8169580_B2-JM_B2-JM_lowres_image (Images), GSM8169580_B2-JM_B2-JM (Shapes)
    ▸ 'GSM8169580_B2-JM_B2-JM_downscaled_hires', with elements:
        GSM8169580_B2-JM_B2-JM_hires_image (Images), GSM8169580_B2-JM_B2-JM (Shapes)
    ▸ 'GSM8169580_B2-JM_B2-JM_downscaled_lowres', with elements:
        GSM8169580_B2-JM_B2-JM_lowres_image (Images), GSM8169580_B2-JM_B2-JM (Shapes)

Install (Python 3.12+) Docs →

Python · sddb client

from sddb import Catalog

ds = Catalog().dataset("FnA2mlZOHy8gSGcF0000")
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("FnA2mlZOHy8gSGcF")   # 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 FnA2mlZOHy8gSGcF0000 --dest data/

# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/FnA2mlZOHy8gSGcF

# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid FnA2mlZOHy8gSGcF

Install (Python 3.12+) Docs →

License: NCBI GEO policy

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Part of collection

Regional and Cell Specific Bioactivity of Injectable ECM Biomaterials in MI through Spatial and Single Nucleus Transcriptomics→

9 datasets · comparison

Metadata

Technology: Visium
Organism: rat
Tissue: heart left ventricle
Condition: myocardial infarction
Modality: RNA
Observations (spots): 3,735
Tier: silver
Chemistry: Visium v1
Resolution: 1,948 × 2,000 px
mpp: 3.408 µm/px
Size: 35.0 MB
Sample ID: GSM8169580
License: NCBI GEO policy
Published: Aug 19, 2025

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