Collections / Spatial transcriptomic dissection of intratumoral heterogeneity and microenvironment in sinonasal and skull base adenoid cystic carcinoma

Spatial transcriptomic dissection of intratumoral heterogeneity and microenvironment in sinonasal and skull base adenoid cystic carcinoma

We profiled 6 patients with sinonasal-skull base adenoid cystic carcinoma by spatial transcriptomics (10x Genomics Visium) to characterize intratumoral heterogeneity and the immune landscape.

Datasets6
Size~174 MB
AssayVisium
Samplehuman · nasal cavity
KindOther
www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE342687 ↗
Python · lamindb
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="geo-gse342687")
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()}
Open in Vitessce
Visium
Human nasal cavity
GSM9936455
human nasal cavity adenoid cystic carcinoma 25 MB 3,628 obs silver H&E
TechnologyVisium
Organismhuman
Tissuenasal cavity
Conditionadenoid cystic carcinoma
Size25 MB
Obs3,628
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human nasal cavity
GSM9936459
human nasal cavity adenoid cystic carcinoma 50 MB 4,460 obs silver H&E
TechnologyVisium
Organismhuman
Tissuenasal cavity
Conditionadenoid cystic carcinoma
Size50 MB
Obs4,460
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human nasal cavity
GSM9936460
human nasal cavity adenoid cystic carcinoma 49 MB 3,791 obs silver H&E
TechnologyVisium
Organismhuman
Tissuenasal cavity
Conditionadenoid cystic carcinoma
Size49 MB
Obs3,791
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human nasal cavity
GSM9936458
human nasal cavity adenoid cystic carcinoma 14 MB 2,318 obs silver H&E
TechnologyVisium
Organismhuman
Tissuenasal cavity
Conditionadenoid cystic carcinoma
Size14 MB
Obs2,318
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human nasal cavity
GSM9936457
human nasal cavity adenoid cystic carcinoma 26 MB 3,276 obs silver H&E
TechnologyVisium
Organismhuman
Tissuenasal cavity
Conditionadenoid cystic carcinoma
Size26 MB
Obs3,276
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human nasal cavity
GSM9936456
human nasal cavity adenoid cystic carcinoma 10 MB 1,843 obs silver H&E
TechnologyVisium
Organismhuman
Tissuenasal cavity
Conditionadenoid cystic carcinoma
Size10 MB
Obs1,843
silver H&E Open in Vitessce

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