Pioneer activity of an oncogenic fusion transcription factor at inaccessible chromatin

We developed a new method for ChIP-seq with per-cell normalization (pc-ChIP-seq) to define PAX3-FOXO1 localization in rhabdomyosarcoma (RMS). We report novel pioneer function for the major driver oncogene in RMS, with nucleosome-motif targeting and kinetic displacement of nucleosomes in human cells. Genomic localization of the PAX3-FOXO1 fusion transcription factor in rhabdomyosarcoma cells and kinetic resolution of PAX3-FOXO1 chromatin occupancy and accessibility changes.