We performed spatial transcriptomics to understand a-synuclein pathology-specific molecular profiles and cell-cell communication in human Lewy Body Dementia (LBD) brains. We included APOE3/3 and APOE3/4 LBD brains to dissect APOE4 impact on a-synuclein pathologies. Our analysis showed the key dysregulated pathways around the pathology comparing LBD brains to control brains, which further exacerbated by APOE4.
from sddb import Catalog
cohort = Catalog().collection("geo-gse293896")
cohort.members # the 10 datasets as a table
print(cohort.licenses()) # check the terms before you download
sdatas = cohort.to_dict() # {uid: SpatialData}, cached locally
# or keep the .zarr files in a folder of your choice:
# sdatas = cohort.to_dict(dest="data/")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")
coll = db.Collection.get(key="geo-gse293896")
coll.ordered_artifacts.to_dataframe() # the 10 members, ordered
# download every member .zarr to the local cache:
paths = [a.cache() for a in coll.ordered_artifacts.all()]# sddb client: download every member .zarr into data/
sddb-cli download --collection geo-gse293896 --dest data/Licenses: 10 NCBI GEO policy
@article{Jin_2026,
title = {Spatially resolved molecular signatures of Lewy body dementia},
volume = {151},
ISSN = {1432-0533},
url = {http://dx.doi.org/10.1007/s00401-026-02981-z},
DOI = {10.1007/s00401-026-02981-z},
number = {1},
journal = {Acta Neuropathologica},
publisher = {Springer Science and Business Media LLC},
author = {Jin, Yunjung and Chen, Kai and Wixom, Alexander Q. and Li, Zonghua and Koga, Shunsuke and Sekiya, Hiroaki and Xhafkollari, Gisela and Castanedes-Casey, Monica and Santhakumar, Hannah and Meneses, Axel D. and Neff, Abigail J. and Bu, Guojun and Heckman, Michael G. and Liu, Yuanhang and Ross, Owen A. and Dickson, Dennis W. and Zhao, Na},
year = {2026},
month = Jan
}