Visium

Human amygdala

GSM9937018

silver Interactive viewer H&E No linked publication

Preview Client Lamin CLI

print(sdata)

SpatialData object
├── Images
│     ├── 'GSM9937018_Br2743-V13Y24-345_A1_full_image': DataTree[cyx] (3, 25632, 25200), (3, 12816, 12600), (3, 6408, 6300), (3, 3204, 3150), (3, 1602, 1575)
│     ├── 'GSM9937018_Br2743-V13Y24-345_A1_hires_image': DataArray[cyx] (3, 2000, 1966)
│     └── 'GSM9937018_Br2743-V13Y24-345_A1_lowres_image': DataArray[cyx] (3, 600, 590)
├── Shapes
│     └── 'GSM9937018_Br2743-V13Y24-345_A1': GeoDataFrame shape: (4992, 2) (2D shapes)
└── Tables
      └── 'table': AnnData (4992, 36601)
with coordinate systems:
    ▸ 'GSM9937018_Br2743-V13Y24-345_A1', with elements:
        GSM9937018_Br2743-V13Y24-345_A1_full_image (Images), GSM9937018_Br2743-V13Y24-345_A1_hires_image (Images), GSM9937018_Br2743-V13Y24-345_A1_lowres_image (Images), GSM9937018_Br2743-V13Y24-345_A1 (Shapes)
    ▸ 'GSM9937018_Br2743-V13Y24-345_A1_downscaled_hires', with elements:
        GSM9937018_Br2743-V13Y24-345_A1_hires_image (Images), GSM9937018_Br2743-V13Y24-345_A1 (Shapes)
    ▸ 'GSM9937018_Br2743-V13Y24-345_A1_downscaled_lowres', with elements:
        GSM9937018_Br2743-V13Y24-345_A1_lowres_image (Images), GSM9937018_Br2743-V13Y24-345_A1 (Shapes)

Install (Python 3.12+) Docs →

Python · sddb client

from sddb import Catalog

ds = Catalog().dataset("ykx5n7rWGcriTs0X0000")
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("ykx5n7rWGcriTs0X")   # 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 ykx5n7rWGcriTs0X0000 --dest data/

# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/ykx5n7rWGcriTs0X

# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid ykx5n7rWGcriTs0X

Install (Python 3.12+) Docs →

License: NCBI GEO policy

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Part of collection

Multiscale spatial transcriptomics resolves the cellular and molecular architecture of the human amygdala [Visium]→

48 datasets · replicates

Metadata

Technology: Visium
Organism: human
Tissue: amygdala
Modality: RNA
Observations (spots): 4,992
Tier: silver
Chemistry: Visium v1
Magnification: 20x
Resolution: 25,200 × 25,632 px
mpp: 0.306 µm/px
Size: 1.9 GB
Sample ID: GSM9937018
License: NCBI GEO policy
Published: Aug 24, 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