DNA binding profile of c-FOS in experimentally-induced basal to squamous cell carcinoma transition (BST)

Basal cell carcinoma may undergo BST spontaneously or upon Hedgehog targeting therapy. We identified that modulation of Ras/MAPK or TGFb signaling drive BST. Here, we induce Ras/MAPK and/or abrogate TGFb signaling to induce BST and examine the DNA binding profile of the AP-1 transcription factor c-FOS. Overall design: Methods: c-FOS ChIP binding profiles of ASZ transfected with TGFbR1-targeting shRNA (TGFbR1kd) upon Dox/4OHT treatment, were generated by deep sequencing, in duplicate, using Illumina NextSeq 500. The sequence reads that passed quality filters were analyzed using bowtie2 for alignment and macs2 for peak calling.