Visium
Human coronary artery
GSM8658914
silver Interactive viewer H&E atherosclerosis ✓ Verified publication
print(sdata)
SpatialData object
├── Images
│ ├── 'GSM8658914_sample3a1_full_image': DataTree[cyx] (3, 3000, 3000), (3, 1500, 1500), (3, 750, 750), (3, 375, 375), (3, 187, 187)
│ ├── 'GSM8658914_sample3a1_hires_image': DataArray[cyx] (3, 1331, 2000)
│ └── 'GSM8658914_sample3a1_lowres_image': DataArray[cyx] (3, 400, 600)
├── Shapes
│ └── 'GSM8658914_sample3a1': GeoDataFrame shape: (999, 2) (2D shapes)
└── Tables
└── 'table': AnnData (999, 18085)
with coordinate systems:
▸ 'GSM8658914_sample3a1', with elements:
GSM8658914_sample3a1_full_image (Images), GSM8658914_sample3a1_hires_image (Images), GSM8658914_sample3a1_lowres_image (Images), GSM8658914_sample3a1 (Shapes)
▸ 'GSM8658914_sample3a1_downscaled_hires', with elements:
GSM8658914_sample3a1_hires_image (Images), GSM8658914_sample3a1 (Shapes)
▸ 'GSM8658914_sample3a1_downscaled_lowres', with elements:
GSM8658914_sample3a1_lowres_image (Images), GSM8658914_sample3a1 (Shapes) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("04cpyE1550QpUiLI") # 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 Load from the CLI
# one-shot: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/04cpyE1550QpUiLI
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 04cpyE1550QpUiLI Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["04cpyE1550QpUiLI0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openPart of collection
Spatial Gene Expression of Human Coronary Arteries Revealed the Molecular Features of Diffuse Intimal Thickening in Explanted Hearts→ 6 datasets · other
Metadata
- Technology
- Visium
- Organism
- human
- Tissue
- coronary artery
- Condition
- atherosclerosis
- Modality
- RNA
- Observations
- 999
- Tier
- silver
- Chemistry
- Visium CytAssist v2
- Resolution
- 2,000 × 1,331 px
- mpp
- 2.117 µm/px
- Size
- 23 MB
- Sample ID
- GSM8658914
- License
- CC BY 4.0
- Published
- Feb 11, 2025
Cite this dataset
doi.org/10.3390/ijms26051949 ↗ BibTeX
@article{Li_2025,
title = {Spatial Gene Expression of Human Coronary Arteries Revealed the Molecular Features of Diffuse Intimal Thickening in Explanted Hearts},
volume = {26},
ISSN = {1422-0067},
url = {http://dx.doi.org/10.3390/ijms26051949},
DOI = {10.3390/ijms26051949},
number = {5},
journal = {International Journal of Molecular Sciences},
publisher = {MDPI AG},
author = {Li, Boaz and Leung, Samuel and Elishaev, Maria and Cheng, Wan Hei and Mocci, Giuseppe and Björkegren, Johan L. M. and Lai, Chi and Singh, Amrit and Wang, Ying},
year = {2025},
month = Feb,
pages = {1949}
}Source: NCBI GEO ↗ · License: CC BY 4.0 ↗ · Reprocessed to SpatialData by SpatialData-DB