Collections / Spatial transcriptomics of the mouse brain across three age groups

Spatial transcriptomics of the mouse brain across three age groups

Datasets6
Size~1.2 GB
AssayVisium
Samplemouse · brain
KindComparison
10.1016/j.cell.2023.07.027 ↗
Download the whole collection
Python · lamindb 
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="doi-10.1016/j.cell.2023.07.027")
coll.ordered_artifacts.df()                 # the 6 members, ordered

# download every member .zarr to the local cache:
paths = [a.cache() for a in coll.ordered_artifacts.all()]

# …or load each straight into memory as a SpatialData object:
sdatas = {a.key: sd.read_zarr(a.cache()) for a in coll.ordered_artifacts.all()}
About the study

Atlas of the aging mouse brain reveals white matter as vulnerable foci.

Read the abstract at the source →
Member datasets · 6
Open in Vitessce
Visium
Mouse brain
NCBI717
mouse brain 198 MB 2,804 obs silver H&E
TechnologyVisium
Organismmouse
Tissuebrain
Size198 MB
Obs2,804
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse brain
NCBI720
mouse brain 206 MB 2,573 obs silver H&E
TechnologyVisium
Organismmouse
Tissuebrain
Size206 MB
Obs2,573
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse brain
NCBI715
mouse brain 212 MB 2,857 obs silver H&E
TechnologyVisium
Organismmouse
Tissuebrain
Size212 MB
Obs2,857
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse brain
NCBI718
mouse brain 226 MB 2,973 obs silver H&E
TechnologyVisium
Organismmouse
Tissuebrain
Size226 MB
Obs2,973
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse brain
NCBI719
mouse brain 203 MB 2,735 obs silver H&E
TechnologyVisium
Organismmouse
Tissuebrain
Size203 MB
Obs2,735
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse brain
NCBI716
mouse brain 221 MB 2,801 obs silver H&E
TechnologyVisium
Organismmouse
Tissuebrain
Size221 MB
Obs2,801
silver H&E Open in Vitessce

Cite this collection

doi.org/10.1016/j.cell.2023.07.027 ↗
BibTeX 
@article{Hahn_2023,
  title = {Atlas of the aging mouse brain reveals white matter as vulnerable foci},
  volume = {186},
  ISSN = {0092-8674},
  url = {http://dx.doi.org/10.1016/j.cell.2023.07.027},
  DOI = {10.1016/j.cell.2023.07.027},
  number = {19},
  journal = {Cell},
  publisher = {Elsevier BV},
  author = {Hahn, Oliver and Foltz, Aulden G. and Atkins, Micaiah and Kedir, Blen and Moran-Losada, Patricia and Guldner, Ian H. and Munson, Christy and Kern, Fabian and Pálovics, Róbert and Lu, Nannan and Zhang, Hui and Kaur, Achint and Hull, Jacob and Huguenard, John R. and Grönke, Sebastian and Lehallier, Benoit and Partridge, Linda and Keller, Andreas and Wyss-Coray, Tony},
  year = {2023},
  month = Sept,
  pages = {4117–4133.e22}
}