Collections / Spatial transcriptomics reveal unnresolved wound repair as potential driver of PFA Ependymoma progression

Spatial transcriptomics reveal unnresolved wound repair as potential driver of PFA Ependymoma progression

Datasets14
Size~5.3 GB
AssayVisium
Samplehuman · brain
KindReplicates
10.1093/neuonc/noac079.165 ↗
Download the whole collection
Python · lamindb 
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="doi-10.1093/neuonc/noac079.165")
coll.ordered_artifacts.df()                 # the 14 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()}
Member datasets · 14
Open in Vitessce
Visium
Human brain
NCBI628
human brain ependymoma 242 MB 1,262 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Conditionependymoma
Size242 MB
Obs1,262
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
NCBI629
human brain ependymoma 312 MB 3,620 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Conditionependymoma
Size312 MB
Obs3,620
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
NCBI641
human brain ependymoma 661 MB 2,236 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Conditionependymoma
Size661 MB
Obs2,236
Magnification20x · 0.471 µm/px
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
NCBI640
human brain ependymoma 271 MB 1,959 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Conditionependymoma
Size271 MB
Obs1,959
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
NCBI635
human brain ependymoma 306 MB 3,027 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Conditionependymoma
Size306 MB
Obs3,027
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
NCBI634
human brain ependymoma 424 MB 1,842 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Conditionependymoma
Size424 MB
Obs1,842
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
NCBI632
human brain ependymoma 271 MB 2,743 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Conditionependymoma
Size271 MB
Obs2,743
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
NCBI630
human brain ependymoma 476 MB 2,961 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Conditionependymoma
Size476 MB
Obs2,961
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
NCBI638
human brain ependymoma 288 MB 3,060 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Conditionependymoma
Size288 MB
Obs3,060
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
NCBI637
human brain ependymoma 741 MB 2,705 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Conditionependymoma
Size741 MB
Obs2,705
Magnification20x · 0.471 µm/px
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
NCBI631
human brain ependymoma 275 MB 2,051 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Conditionependymoma
Size275 MB
Obs2,051
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
NCBI636
human brain ependymoma 253 MB 1,616 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Conditionependymoma
Size253 MB
Obs1,616
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
NCBI633
human brain ependymoma 486 MB 3,153 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Conditionependymoma
Size486 MB
Obs3,153
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
NCBI639
human brain ependymoma 387 MB 979 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Conditionependymoma
Size387 MB
Obs979
silver H&E Open in Vitessce

Cite this collection

doi.org/10.1093/neuonc/noac079.165 ↗
BibTeX 
@article{Donson_2022,
  title = {EPEN-29. Spatial transcriptomic analysis of ependymoma implicates unresolved wound healing as a driver of tumor progression},
  volume = {24},
  ISSN = {1523-5866},
  url = {http://dx.doi.org/10.1093/neuonc/noac079.165},
  DOI = {10.1093/neuonc/noac079.165},
  number = {Supplement_1},
  journal = {Neuro-Oncology},
  publisher = {Oxford University Press (OUP)},
  author = {Donson, Andrew and Fu, Rui and Norris, gregory and Willard, Nicholas and Griesinger, Andrea and Riemondy, Kent and Amani, Vladimir and Grimaldo, Enrique and Harris, Faith and Hankinson, Todd and Mitra, Siddhartha and Ritzmann, timothy and Grundy, Richard and Foreman, Nicholas},
  year = {2022},
  month = June,
  pages = {i45–i45}
}