Bulk RNA-Seq of cutaneous squamous cell carcinomas (cSCC) with paired normal controls

RNA-Seq was performed on 8 cSCC-normal pairs Overall design: Total RNA was then isolated from human skin organoids using QIAshredder (Qiagen) and Trizol (ThermoFisher) followed by DNA removal with the TURBO DNA-free kit (Ambion) according to the manufacturer's instructions. RNA integrity was verified using an Agilent 2100 Bioanalyzer. RNA-Seq libraries were prepared with the mRNA Seq Sample Prep Kit (Illumina, Inc.) as recommended by the manufacturer. 101 bp paired-end sequencing reads were obtained using the Illumina HiSeq platform.