Visium

Human brain

GSM9544608

bronze H&E lung carcinoma Provisional

Preview Client Lamin CLI

print(sdata)

SpatialData object
├── Images
│     ├── 'GSM9544608_LBM_USC_2_1_HPT_hires_image': DataArray[cyx] (3, 1930, 2000)
│     └── 'GSM9544608_LBM_USC_2_1_HPT_lowres_image': DataArray[cyx] (3, 579, 600)
├── Shapes
│     └── 'GSM9544608_LBM_USC_2_1_HPT': GeoDataFrame shape: (1244, 2) (2D shapes)
└── Tables
      └── 'table': AnnData (1244, 18085)
with coordinate systems:
    ▸ 'GSM9544608_LBM_USC_2_1_HPT', with elements:
        GSM9544608_LBM_USC_2_1_HPT_hires_image (Images), GSM9544608_LBM_USC_2_1_HPT_lowres_image (Images), GSM9544608_LBM_USC_2_1_HPT (Shapes)
    ▸ 'GSM9544608_LBM_USC_2_1_HPT_downscaled_hires', with elements:
        GSM9544608_LBM_USC_2_1_HPT_hires_image (Images), GSM9544608_LBM_USC_2_1_HPT (Shapes)
    ▸ 'GSM9544608_LBM_USC_2_1_HPT_downscaled_lowres', with elements:
        GSM9544608_LBM_USC_2_1_HPT_lowres_image (Images), GSM9544608_LBM_USC_2_1_HPT (Shapes)

Install (Python 3.12+) Docs →

Python · sddb client

from sddb import Catalog

ds = Catalog().dataset("20bve5HwpJeWxR3b0000")
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("20bve5HwpJeWxR3b")   # 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 20bve5HwpJeWxR3b0000 --dest data/

# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/20bve5HwpJeWxR3b

# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 20bve5HwpJeWxR3b

Install (Python 3.12+) Docs →

License: NCBI GEO policy

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Part of collection

Single cell and spatial sequencing analysis of cancer associated fibroblasts in the brain metastasis tumor microenvironment→

4 datasets · other

Metadata

Technology: Visium
Organism: human
Tissue: brain
Condition: lung carcinoma
Modality: RNA
Observations (spots): 1,244
Tier: bronze
Chemistry: Visium v1
Resolution: 2,000 × 1,930 px
mpp: 2.089 µm/px
Size: 46.6 MB
Sample ID: GSM9544608
License: NCBI GEO policy
Published: Mar 5, 2026

Cite this dataset

doi.org/10.1038/s42003-026-09915-1 ↗

BibTeX

@article{geo:GSE320505,
  doi = {10.1038/s42003-026-09915-1},
  title = {GSM9544608},
  year = {2026}
}

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