Visium
Human small intestine
GSM9078979
bronze Interactive viewer H&E small intestine neuroendocrine neoplasm Provisional
print(sdata)
SpatialData object
├── Images
│ ├── 'GSM9078979_V13B16-367_C1_hires_image': DataArray[cyx] (3, 1898, 2000)
│ └── 'GSM9078979_V13B16-367_C1_lowres_image': DataArray[cyx] (3, 570, 600)
├── Shapes
│ └── 'GSM9078979_V13B16-367_C1': GeoDataFrame shape: (1177, 2) (2D shapes)
└── Tables
└── 'table': AnnData (1177, 17943)
with coordinate systems:
▸ 'GSM9078979_V13B16-367_C1', with elements:
GSM9078979_V13B16-367_C1_hires_image (Images), GSM9078979_V13B16-367_C1_lowres_image (Images), GSM9078979_V13B16-367_C1 (Shapes)
▸ 'GSM9078979_V13B16-367_C1_downscaled_hires', with elements:
GSM9078979_V13B16-367_C1_hires_image (Images), GSM9078979_V13B16-367_C1 (Shapes)
▸ 'GSM9078979_V13B16-367_C1_downscaled_lowres', with elements:
GSM9078979_V13B16-367_C1_lowres_image (Images), GSM9078979_V13B16-367_C1 (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("e1XMV6w7DQSuhjKo0000")
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("e1XMV6w7DQSuhjKo") # 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 e1XMV6w7DQSuhjKo0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/e1XMV6w7DQSuhjKo
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid e1XMV6w7DQSuhjKoLicense: NCBI GEO policy
Part of collection
Spatial Transcriptomics Reveals Local Subtype-Specific Identity and Signaling within Multifocal Small Intestinal Neuroendocrine Tumors→ 8 datasets · replicates
Metadata
- Technology
- Visium
- Organism
- human
- Tissue
- small intestine
- Condition
- small intestine neuroendocrine neoplasm
- Modality
- RNA
- Observations (spots)
- 1,177
- Tier
- bronze
- Chemistry
- Visium v1
- Magnification
- other
- Resolution
- 2,000 × 1,898 px
- mpp
- 3.571 µm/px
- Size
- 18.2 MB
- Sample ID
- GSM9078979
- License
- NCBI GEO policy
- Published
- Feb 9, 2026
Cite this dataset
doi.org/10.1158/1078-0432.ccr-25-2854 ↗ BibTeX
@article{Yogo_2026,
title = {Spatial Transcriptomics Reveals Location-Specific Tumor Cell Subtypes and Signaling within Multifocal Small Intestinal Neuroendocrine Tumors},
volume = {32},
ISSN = {1557-3265},
url = {http://dx.doi.org/10.1158/1078-0432.ccr-25-2854},
DOI = {10.1158/1078-0432.ccr-25-2854},
number = {10},
journal = {Clinical Cancer Research},
publisher = {American Association for Cancer Research (AACR)},
author = {Yogo, Akitada and Akanuma, Naoki and Kim, Grace E. and Mäkinen, Netta and Thirlwell, Chrissie and Nakakura, Eric K.},
year = {2026},
month = Mar,
pages = {2098–2109}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB