Multimodal Analysis of Composition and Spatial Architecture in Human Squamous Cell Carcinoma
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Dataset information
Summary:
To define the cellular composition and spatial architecture of the tumor micoenvironment, we combined single-cell RNA-sequencing, spatial transcriptomics, and multiplexed ion-beam imaging from 10 patient cutaneous squamous cell carcinoma tumors and site-matched normal skinOverall design:
Patient tumors were fresh frozen and sectioned at 10um thickness onto spatial transcriptomics (ST) slides for mRNA capture, followed by library preparation and sequencingTechnology:
10x Visium, Spatial Transcriptomics, scRNA
Platform:
Illumina NextSeq 500
Species:
Homo sapiens(hg19)
Tissues:
Skin
Cell types:
fibroblasts, endothelial cells, melanocytes, CLEC9A, CD1C, plasmacytoid, AXL+SIGLEC6+ (AS) dendritic cells (DCs)
Disease:
Squamous cell carcinomaCitation:
Ji, Andrew L et al. “Multimodal Analysis of Composition and Spatial Architecture in Human Squamous Cell Carcinoma.” Cell vol. 182,2 (2020): 497-514.e22. doi:10.1016/j.cell.2020.05.039Submission date: 2020-01-24Update date: 2020-11-18
Sample number: 6Section number: 19
Contributors
Andrew Ji
Contact: andrewji@stanford.edu
Accessions
GEO Series Accessions:
GSE144239