Role of Transforming Growth Factor-ß1 in Recessive Dystrophic Epidermolysis Bullosa Squamous Cell Carcinoma

The goal of this RNA-seq experiment was to determine how gene expression in RDEBSCC cell lines was altered relative to normal culture conditions when the culture media was supplemented with TGFb1 or TGFb1 and a TGFb1 inhibitor (SB431542). Overall design: Three cell lines derived from squamous cell carcinoma tumors in patients with recessive dystrophic epidermolysis bullosa were used (2, 4, and 70). RNA-seq was performed for three experimental conditions for each cell line. The three conditions were (1) media only, (2) media+TGFb1, and (3) media+TGFb1+SB431542 (TGFb1 inhibitor). Each experimental condition was replicated three times for each cell line, except condition 2 and 3 for cell line 2, where the samples were lost, resulting in a total of 25 paired-end samples.