Collections / spatialLIBD

spatialLIBD

Datasets12
Size~5.3 GB
AssayVisium
Samplehuman · brain
KindPublication
10.1038/s41593-020-00787-0 ↗
Download the whole collection
Python · lamindb 
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="doi-10.1038/s41593-020-00787-0")
coll.ordered_artifacts.df()                 # the 12 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

Transcriptome-scale spatial gene expression in the human dorsolateral prefrontal cortex.

Read the abstract at the source →
Member datasets · 12
Open in Vitessce
Visium
Human brain
MISC2
human brain 426 MB 3,592 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Size426 MB
Obs3,592
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
MISC5
human brain 452 MB 4,015 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Size452 MB
Obs4,015
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
MISC12
human brain 471 MB 4,226 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Size471 MB
Obs4,226
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
MISC8
human brain 419 MB 3,661 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Size419 MB
Obs3,661
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
MISC4
human brain 443 MB 3,639 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Size443 MB
Obs3,639
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
MISC10
human brain 509 MB 4,789 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Size509 MB
Obs4,789
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
MISC3
human brain 439 MB 3,673 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Size439 MB
Obs3,673
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
MISC7
human brain 415 MB 3,498 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Size415 MB
Obs3,498
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
MISC11
human brain 471 MB 4,384 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Size471 MB
Obs4,384
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
MISC9
human brain 512 MB 4,634 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Size512 MB
Obs4,634
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
MISC6
human brain 453 MB 4,110 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Size453 MB
Obs4,110
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
MISC1
human brain 420 MB 3,460 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Size420 MB
Obs3,460
silver H&E Open in Vitessce

Cite this collection

doi.org/10.1038/s41593-020-00787-0 ↗
BibTeX 
@article{Maynard_2021,
  title = {Transcriptome-scale spatial gene expression in the human dorsolateral prefrontal cortex},
  volume = {24},
  ISSN = {1546-1726},
  url = {http://dx.doi.org/10.1038/s41593-020-00787-0},
  DOI = {10.1038/s41593-020-00787-0},
  number = {3},
  journal = {Nature Neuroscience},
  publisher = {Springer Science and Business Media LLC},
  author = {Maynard, Kristen R. and Collado-Torres, Leonardo and Weber, Lukas M. and Uytingco, Cedric and Barry, Brianna K. and Williams, Stephen R. and Catallini, Joseph L. and Tran, Matthew N. and Besich, Zachary and Tippani, Madhavi and Chew, Jennifer and Yin, Yifeng and Kleinman, Joel E. and Hyde, Thomas M. and Rao, Nikhil and Hicks, Stephanie C. and Martinowich, Keri and Jaffe, Andrew E.},
  year = {2021},
  month = Feb,
  pages = {425–436}
}