Visium
Human pancreas
GSM8641029
bronze Interactive viewer H&E pancreatic ductal adenocarcinoma Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'GSM8641029_C2_D10_s4_hires_image': DataArray[cyx] (3, 1959, 2000)
├── Shapes
│ └── 'GSM8641029_C2_D10_s4': GeoDataFrame shape: (4305, 2) (2D shapes)
└── Tables
└── 'table': AnnData (4305, 19144)
with coordinate systems:
▸ 'GSM8641029_C2_D10_s4', with elements:
GSM8641029_C2_D10_s4_hires_image (Images), GSM8641029_C2_D10_s4 (Shapes)
▸ 'GSM8641029_C2_D10_s4_downscaled_hires', with elements:
GSM8641029_C2_D10_s4_hires_image (Images), GSM8641029_C2_D10_s4 (Shapes)
▸ 'GSM8641029_C2_D10_s4_downscaled_lowres', with elements:
GSM8641029_C2_D10_s4 (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("RIpTF0yvnBosSFv00000")
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("RIpTF0yvnBosSFv0") # 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 RIpTF0yvnBosSFv00000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/RIpTF0yvnBosSFv0
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid RIpTF0yvnBosSFv0License: NCBI GEO policy
Part of collection
In situ multi-modal characterization of pancreatic cancer reveals tumor cell identity as a defining factor of the surrounding microenvironment [Spatial Transcriptomics]→ 108 datasets · other
Metadata
- Technology
- Visium
- Organism
- human
- Tissue
- pancreas
- Condition
- pancreatic ductal adenocarcinoma
- Modality
- RNA
- Observations (spots)
- 4,305
- Tier
- bronze
- Chemistry
- Visium v1
- Resolution
- 2,000 × 1,959 px
- mpp
- 3.327 µm/px
- Size
- 122 MB
- Sample ID
- GSM8641029
- License
- NCBI GEO policy
- Published
- Dec 3, 2025
Cite this dataset
doi.org/10.1016/j.celrep.2025.116827 ↗ BibTeX
@article{Lyubetskaya_2026,
title = {In situ multi-modal characterization of pancreatic cancer reveals tumor cell identity as a defining factor of the surrounding microenvironment},
volume = {45},
ISSN = {2211-1247},
url = {http://dx.doi.org/10.1016/j.celrep.2025.116827},
DOI = {10.1016/j.celrep.2025.116827},
number = {1},
journal = {Cell Reports},
publisher = {Elsevier BV},
author = {Lyubetskaya, Anna and Rabe, Brian and Kavran, Andrew and Bai, Yulong and Fisher, Andrew and Font-Tello, Alba and Lewin, Anne and Pliner, Hannah and Fan, Yunfan and Giampapa, Lauren and Cheng, Yelena and Dai, Chao and Hu, Ruifeng and Lila, Tom and Alloy, Alexandre P. and Mason, Mike and Brett, Constance and Brett, Todd and Seifuddin, Fayaz and Vasquez Grinnell, Steven and Stahlschmidt, Soren R. and Zhao, Yilin and Golhar, Ryan and Neuhaus, Isaac and Carrera, Daniel and Rios, Carlos and Kar, Pradeep and Shukla, Abhishek and Bashford-Rogers, Rachael and Meyer, Matthew J. and Abu Shah, Enas and Heij, Lara and Sivakumar, Shivan and Trillo-Tinoco, Jimena and Chen, Benjamin J. and Mavrakis, Konstantinos J. and Drokhlyansky, Eugene},
year = {2026},
month = Jan,
pages = {116827}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB