Single Cell and Spatial Analysis of Human Squamous Cell Carcinoma [single-cell RNA-seq]

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 skin Patient tumors, normal skin, and tumor xenografts of human SCC cell lines in immunocompromised mice were dissociated into single-cell suspensions and scRNA-seq was performed with the 10X Chromium 3' v2 platform. A prior patient metadata file (patient_metadata.txt.gz) contained scrambled barcode names. An updated file (patient_metadata_new.txt.gz) is now corrected to match the counts matrix barcode names.