Visium HD
Human bone element
GSM9556003
silver Interactive viewer H&E Ewing sarcoma No linked publication
print(sdata)
SpatialData object
├── Images
│ ├── 'GSM9556003_033_pre_hires_image': DataArray[cyx] (3, 6000, 4580)
│ └── 'GSM9556003_033_pre_lowres_image': DataArray[cyx] (3, 600, 458)
├── Shapes
│ ├── 'GSM9556003_033_pre_square_008um': GeoDataFrame shape: (10355, 1) (2D shapes)
│ └── 'GSM9556003_033_pre_square_008um_for_vitessce': GeoDataFrame shape: (10355, 2) (2D shapes)
└── Tables
└── 'square_008um': AnnData (10355, 18085)
with coordinate systems:
▸ 'GSM9556003_033_pre', with elements:
GSM9556003_033_pre_hires_image (Images), GSM9556003_033_pre_lowres_image (Images), GSM9556003_033_pre_square_008um (Shapes), GSM9556003_033_pre_square_008um_for_vitessce (Shapes)
▸ 'GSM9556003_033_pre_downscaled_hires', with elements:
GSM9556003_033_pre_hires_image (Images), GSM9556003_033_pre_square_008um (Shapes), GSM9556003_033_pre_square_008um_for_vitessce (Shapes)
▸ 'GSM9556003_033_pre_downscaled_lowres', with elements:
GSM9556003_033_pre_lowres_image (Images), GSM9556003_033_pre_square_008um (Shapes), GSM9556003_033_pre_square_008um_for_vitessce (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("DBbUxBEFDEdR96lE0000")
ds.elements() # inspect without downloading
sdata = ds.to_sdata() # cached locally, reused
print(sdata) 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("DBbUxBEFDEdR96lE") # 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 Shell
# sddb client: download the .zarr into data/
sddb-cli download DBbUxBEFDEdR96lE0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/DBbUxBEFDEdR96lE
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid DBbUxBEFDEdR96lELicense: NCBI GEO policy
Metadata
- Technology
- Visium HD
- Organism
- human
- Tissue
- bone element
- Condition
- Ewing sarcoma
- Modality
- RNA
- Observations (bins)
- 10,355
- Tier
- silver
- Resolution
- 4,580 × 6,000 px
- mpp
- 1.437 µm/px
- Size
- 25.4 MB
- Sample ID
- GSM9556003
- License
- NCBI GEO policy
- Published
- Mar 2, 2026
Cite this dataset
doi.org/10.1038/s41591-026-04340-7 ↗ BibTeX
@article{geo:GSE322640,
title = {Trabectedin and low-dose irinotecan to target EWS::FLI1 in Ewing sarcoma: a phase 1/2 trial},
volume = {32},
ISSN = {1546-170X},
url = {http://dx.doi.org/10.1038/s41591-026-04340-7},
DOI = {10.1038/s41591-026-04340-7},
number = {6},
journal = {Nature Medicine},
publisher = {Springer Science and Business Media LLC},
author = {Grohar, Patrick J. and Heise, Rachel and Wedekind, Mary Frances and Ballman, Karla and Mascarenhas, Leo and DuBois, Steven G. and Maki, Robert G. and Boguslawski, Elissa A. and Gedminas, Jenna M. and Wilson, Elizabeth R. and Thomas, Elaine and Segers, Blair and Surrey, Lea F. and Ricker, Cora and Klega, Kelly and Navid, Fariba and Lam, Gretchen Y. and The, Stephanie and Kaufman, Rebecca and Roberts, Ryan D. and Hayashi, Masanori and Mena, Esther and Overman, Lindsey and Peer, Cody and Schmidt, Keith and Diamond, Mark S. and Figg, William D. and Bagatell, Rochelle and Liza Lindenberg, M. and Choyke, Peter L. and Crompton, Brian D. and Widemann, Brigitte C. and Glod, John W. and Laetsch, Theodore W. and Reinke, Denise K. and Chugh, Rashmi},
year = {2026},
month = Apr,
pages = {2227–2237}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB