Xenium
Human brain
IDH-mutant gliomas arise from glial progenitor cells harboring the initial driver mutation (Related accession no. GSE275791) - Spatial transcriptomics dataset: HumanBrain-Tumor-Astrocytoma (IDH-mutant glioma, 61 years)
bronze Interactive viewer astrocytoma (excluding glioblastoma) Provisional
print(sdata)
SpatialData object
├── Images
│ └── 'morphology_mip': DataTree[cyx] (1, 30705, 31287), (1, 15352, 15643), (1, 7676, 7821), (1, 3838, 3910), (1, 1919, 1955)
├── Labels
│ ├── 'cell_labels': DataTree[yx] (28901, 29074), (14450, 14537), (7225, 7268), (3612, 3634), (1806, 1817)
│ └── 'nucleus_labels': DataTree[yx] (28853, 29029), (14426, 14514), (7213, 7257), (3606, 3628), (1803, 1814)
├── Points
│ └── 'transcripts': DataFrame with shape: (20378979, 13) (3D points)
├── Shapes
│ ├── 'cell_boundaries': GeoDataFrame shape: (45749, 1) (2D shapes)
│ ├── 'cell_circles': GeoDataFrame shape: (45749, 2) (2D shapes)
│ └── 'nucleus_boundaries': GeoDataFrame shape: (45749, 2) (2D shapes)
└── Tables
└── 'table': AnnData (45749, 339)
with coordinate systems:
▸ 'global', with elements:
morphology_mip (Images), cell_labels (Labels), nucleus_labels (Labels), transcripts (Points), cell_boundaries (Shapes), cell_circles (Shapes), nucleus_boundaries (Shapes) Python · sddb client
from sddb import Catalog
ds = Catalog().dataset("02Eit7X4hBAdtBWW0000")
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("02Eit7X4hBAdtBWW") # 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 02Eit7X4hBAdtBWW0000 --dest data/
# or lamin: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/02Eit7X4hBAdtBWW
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid 02Eit7X4hBAdtBWWLicense: NCBI GEO policy
Metadata
- Technology
- Xenium
- Vendor
- 10x Genomics
- Organism
- human
- Tissue
- brain
- Condition
- astrocytoma (excluding glioblastoma)
- Modality
- RNA
- Observations (cells)
- 45,749
- Transcripts
- 20,378,979
- Target genes
- 339
- Tier
- bronze
- Size
- 984 MB
- Sample ID
- GSM9107839
- License
- NCBI GEO policy
- Published
- Jan 13, 2026
Cite this dataset
doi.org/10.1126/science.adt0559 ↗ BibTeX
@article{geo:GSE302642,
doi = {10.1126/science.adt0559},
title = {IDH-mutant gliomas arise from glial progenitor cells harboring the initial driver mutation (Related accession no. GSE275791) - Spatial transcriptomics dataset: HumanBrain-Tumor-Astrocytoma (IDH-mutant glioma, 61 years)},
year = {2026}
}Source: NCBI GEO ↗ · License: NCBI GEO policy ↗ · Reprocessed to SpatialData by SpatialData-DB