Collections / Visium Analysis of head and neck squamous carcinoma (HNSCC) spatial transcriptome evolution

Visium Analysis of head and neck squamous carcinoma (HNSCC) spatial transcriptome evolution

We collected HNSCC primary tumor sections from head and neck squamous cell carcinoma patients at the Taipei Veterans General Hospital (TVGH) for 10x Genomics Visium analysis.

Datasets8
Size~115 MB
AssayVisium
Samplehuman · craniocervical region
KindComparison
PMID:36002186 ↗
Python · lamindb
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="geo-gse181300")
coll.ordered_artifacts.df()                 # the 8 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()}
Open in Vitessce
Visium
Human craniocervical region
GSM5494480
human craniocervical region head and neck squamous cell carcinoma 14 MB 1,853 obs bronze H&E
TechnologyVisium
Organismhuman
Tissuecraniocervical region
Conditionhead and neck squamous cell carcinoma
Size14 MB
Obs1,853
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human craniocervical region
GSM5494477
human craniocervical region head and neck squamous cell carcinoma 16 MB 1,191 obs bronze H&E
TechnologyVisium
Organismhuman
Tissuecraniocervical region
Conditionhead and neck squamous cell carcinoma
Size16 MB
Obs1,191
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human craniocervical region
GSM5494478
human craniocervical region head and neck squamous cell carcinoma 22 MB 1,522 obs bronze H&E
TechnologyVisium
Organismhuman
Tissuecraniocervical region
Conditionhead and neck squamous cell carcinoma
Size22 MB
Obs1,522
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human craniocervical region
GSM5494481
human craniocervical region head and neck squamous cell carcinoma 12 MB 1,470 obs bronze H&E
TechnologyVisium
Organismhuman
Tissuecraniocervical region
Conditionhead and neck squamous cell carcinoma
Size12 MB
Obs1,470
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human craniocervical region
GSM5494482
human craniocervical region head and neck squamous cell carcinoma 8.4 MB 924 obs bronze H&E
TechnologyVisium
Organismhuman
Tissuecraniocervical region
Conditionhead and neck squamous cell carcinoma
Size8.4 MB
Obs924
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human craniocervical region
GSM5494479
human craniocervical region head and neck squamous cell carcinoma 10 MB 2,197 obs bronze H&E
TechnologyVisium
Organismhuman
Tissuecraniocervical region
Conditionhead and neck squamous cell carcinoma
Size10 MB
Obs2,197
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human craniocervical region
GSM5494476
human craniocervical region head and neck squamous cell carcinoma 20 MB 1,726 obs bronze H&E
TechnologyVisium
Organismhuman
Tissuecraniocervical region
Conditionhead and neck squamous cell carcinoma
Size20 MB
Obs1,726
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human craniocervical region
GSM5494475
human craniocervical region head and neck squamous cell carcinoma 13 MB 1,155 obs bronze H&E
TechnologyVisium
Organismhuman
Tissuecraniocervical region
Conditionhead and neck squamous cell carcinoma
Size13 MB
Obs1,155
Magnificationother · 3.415 µm/px
bronze H&E Open in Vitessce

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